Conditions: Spinal Muscular Atrophy
Keywords: Reldesemtiv
Allocation: RANDOMIZED | Intervention model: PARALLEL
Enrollment: 70
Healthy volunteers: no

Brief summary:
This study will evaluate the pharmacodynamic (PD) effect of CK-2127107 (hereafter referred to as reldesemtiv) versus placebo on measures of skeletal muscle function or fatigability in patients with Type II, III, or IV spinal muscular atrophy (SMA).

Detailed description:
CY 5021 is a Phase 2, double-blind, randomized, placebo-controlled, multiple dose study of reldesemtiv in 2 sequential ascending dose cohorts of patients with SMA. Patients will be randomized 2:1 to receive reldesemtiv or placebo twice daily for 8 weeks. Patients randomized to reldesemtiv in Cohort 1 will receive a dose of 150 mg twice daily and patients randomized to reldesemtiv in Cohort 2 will receive 450 mg twice daily. Within each cohort, randomization will be stratified by ambulatory status (ambulatory versus non ambulatory).

The primary objective of the study is to determine the PD effects of reldesemtiv on measures of pulmonary function, respiratory function, muscle strength, and motor function. Other PD measures include changes in the timed up and go (TUG) test, a 6-minute walk test (6MWT), and patient and investigator global assessments. Secondary objectives include the safety of multiple doses of reldesemtiv and an evaluation of the pharmacokinetics of reldesemtiv.

Arms:
arm 1: Patients randomized to this treatment arm will receive a placebo suspension twice daily for 8 weeks. arm 2: Patient randomized to this treatment arm will receive reldesemtiv suspension at a dose of 150 mg, twice daily for 8 weeks. arm 3: Patients randomized to this treatment arm will receive reldesemtiv suspension at a dose of 450 mg, twice daily for 8 weeks.

Interventions: intervention 1: Placebo intervention 2: Reldesemtiv 150 mg intervention 3: Reldesemtiv 450 mg
Intervention descriptions: intervention 1: Granules for oral suspension (placebo) intervention 2: Granules for oral suspension, 18.7% reldesemtiv intervention 3: Granules for oral suspension, 56.0% reldesemtiv

Protocol document:
Prot_000.pdf: 
Protocol CY 5021                        
CONFIDENTIAL 
 
 
CY 5021 Protocol Amendment 03: 16 Mar 2018 
1  
 
 
 
PROTOCOL CY 5021 
 
A PHASE 2, DOUBLE-BLIND, RANDOMIZED, PLACEBO-CONTROLLED, 
MULTIPLE DOSE STUDY OF CK-2127107 IN TWO ASCENDING DOSE COHORTS 
OF PATIENTS WITH SPINAL MUSCULAR ATROPHY (SMA)  
 
 
Product:  
 
 
 
CK-2127107 
 
Sponsor:  
 
 
 
Cytokinetics Inc. 
 
 
 
 
 
 
 
280 East Grand Avenue 
South San Francisco, California 94080 
 
 
Original Protocol: 
 
 
 
26 October 2015 
 
Amendment 01:  
 
 
 
31 May 2016 
 
Amendment 01.1 (Canada):  
28 September 2016 
 
 
Amendment 01.2 (Canada):  
12 October 2016 
 
Amendment 02:  
 
 
 
03 February 2017 
 
Amendment 03:  
 
 
 
16 March 2018 
 
 
CONFIDENTIAL  
DO NOT COPY OR REPRODUCE 
WITHOUT CONSENT OF CYTOKINETICS, INC. 
 


Protocol CY 5021                        
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CY 5021 Protocol Amendment 03: 16 Mar 2018 
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TABLE OF CONTENTS 
STUDY IDENTIFICATION ...........................................................................................................7 
INVESTIGATOR PROTOCOL AGREEMENT PAGE .................................................................8 
LIST OF ABBREVIATIONS AND DEFINITIONS OF TERMS ..................................................9 
1. 
INTRODUCTION ......................................................................................................11 
1.1. 
Background .................................................................................................................11 
1.2. 
Overview of CK-2127107 Nonclinical Studies ..........................................................11 
1.3. 
Overview of CK-2127107 Clinical Studies ................................................................12 
2. 
STUDY OBJECTIVES ..............................................................................................16 
2.1. 
Primary Objective .......................................................................................................16 
2.2. 
Secondary Objectives .................................................................................................16 
3. 
STUDY OVERVIEW .................................................................................................17 
3.1. 
Study Design ...............................................................................................................17 
3.2. 
Study Rationale ...........................................................................................................19 
3.3. 
Dose Rationale ............................................................................................................19 
4. 
STUDY POPULATION .............................................................................................21 
4.1. 
Inclusion Criteria ........................................................................................................21 
4.2. 
Exclusion Criteria .......................................................................................................22 
5. 
STUDY PROCEDURES ............................................................................................24 
5.1. 
Screening ....................................................................................................................24 
5.2. 
First Dosing Day (Day 1) ...........................................................................................24 
5.3. 
End of Week 1 Visit ...................................................................................................25 
5.4. 
End of Week 2 Visit ...................................................................................................26 
5.5. 
End of Week 4 Visit ...................................................................................................27 
5.6. 
End of Week 8 Visit ...................................................................................................27 
5.7. 
Follow-Up Visit ..........................................................................................................28 
5.8. 
Visit Windows ............................................................................................................29 
5.9. 
Diet Control ................................................................................................................29 
5.10. 
Concomitant Medications ...........................................................................................29 
5.11. 
Pharmacokinetic Sampling .........................................................................................29 
5.12. 
Clinical Safety Assessments .......................................................................................30 
5.12.1. 
Clinical Laboratory Evaluations .................................................................................30 


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5.12.2. 
12-Lead Electrocardiograms .......................................................................................30 
5.12.3. 
Vital Signs ..................................................................................................................30 
5.12.4. 
AE Assessments ..........................................................................................................30 
5.12.5. 
Physical Examinations ................................................................................................31 
5.12.6. 
Neurological Examinations ........................................................................................31 
5.12.7. 
Beck Depression Inventory (BDI®) ............................................................................31 
5.13. 
Clinical and Pharmacodynamic Outcome Measures ..................................................31 
5.13.1. 
Pulmonary Function Assessments ..............................................................................31 
5.13.2. 
Hand-Held Dynamometry ..........................................................................................31 
5.13.3. 
Hammersmith Functional Motor Scale-Expanded (HFMS-E) ...................................31 
5.13.4. 
Revised Upper Limb Module (RULM) ......................................................................31 
5.13.5. 
Timed Up and Go (TUG) Test ....................................................................................31 
5.13.6. 
6-Minute Walk Test (6MWT) ....................................................................................31 
5.13.7. 
Global Assessments ....................................................................................................31 
5.13.8. 
SMA-HI ......................................................................................................................32 
5.14. 
Removal of Patients from Study Participation ...........................................................32 
5.15. 
Assessment of Safety ..................................................................................................33 
5.16. 
Replacement of Patients .............................................................................................33 
5.17. 
Study Discontinuation ................................................................................................33 
6. 
INVESTIGATIONAL PRODUCT ............................................................................34 
6.1. 
Description of Investigational Product .......................................................................34 
6.2. 
Dose Preparation and Administration .........................................................................34 
6.3. 
Dosing Diary ...............................................................................................................35 
6.4. 
Randomization ............................................................................................................35 
6.5. 
Study Drug Accountability and Disposal ...................................................................35 
7. 
ADVERSE EVENTS..................................................................................................36 
7.1. 
Definitions ..................................................................................................................36 
7.1.1. 
Adverse Event .............................................................................................................36 
7.1.2. 
Serious Adverse Event ................................................................................................37 
7.2. 
Collection of AEs/SAEs .............................................................................................38 
7.3. 
Recording and Reporting of AEs/SAEs .....................................................................38 
7.3.1. 
Recording and Reporting of AEs ................................................................................38 
7.3.2. 
Recording and Reporting of SAEs .............................................................................38 


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7.4. 
Evaluating AEs and SAEs ..........................................................................................38 
7.4.1. 
Assessment of Severity ...............................................................................................38 
7.4.2. 
Assessment of Causality .............................................................................................39 
7.5. 
Follow-Up of AEs and SAEs ......................................................................................39 
7.6. 
Post-Study AEs/SAEs .................................................................................................40 
7.7. 
Pregnancy ...................................................................................................................40 
8. 
STATISTICAL METHODS .......................................................................................41 
8.1. 
General Considerations ...............................................................................................41 
8.1.1. 
General Approach .......................................................................................................41 
8.1.2. 
Sample Size and Randomization ................................................................................41 
8.2. 
Analysis Populations ..................................................................................................42 
8.2.1. 
Safety Analysis Set (SAS) ..........................................................................................42 
8.2.2. 
Pharmacokinetics Analysis Set (PKS) ........................................................................42 
8.2.3. 
Pharmacodynamic Analysis Set (PDS) ......................................................................42 
8.3. 
Statistical Analysis ......................................................................................................42 
8.3.1. 
Patient Disposition ......................................................................................................42 
8.3.2. 
Demographics and Other Baseline Characteristics .....................................................42 
8.4. 
Safety Analysis ...........................................................................................................42 
8.4.1. 
Study Drug Exposure ..................................................................................................42 
8.4.2. 
Adverse Events ...........................................................................................................42 
8.4.3. 
Serious Adverse Events ..............................................................................................43 
8.4.4. 
Concomitant Medications ...........................................................................................43 
8.4.5. 
Clinical Laboratory Parameters ..................................................................................43 
8.4.6. 
Vital Signs ..................................................................................................................43 
8.4.7. 
Electrocardiogram (ECG) ...........................................................................................43 
8.5. 
Pharmacodynamic Analysis........................................................................................43 
8.5.1. 
Forced Vital Capacity (FVC) ......................................................................................43 
8.5.2. 
Maximum Inspiratory Pressure (MIP) / Maximum Expiratory Pressure 
(MEP) .........................................................................................................................43 
8.5.3. 
Hand-Held Dynamometry ..........................................................................................43 
8.5.4. 
Hammersmith Functional Motor Scale-Expanded (HFMS-E) ...................................44 
8.5.5. 
Revised Upper Limb Module (RULM) ......................................................................44 
8.5.6. 
Timed Up and Go (TUG) Test ....................................................................................44 


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8.5.7. 
6-Minute Walk Test (6MWT) ....................................................................................44 
8.5.8. 
Global Assessments ....................................................................................................44 
8.5.9. 
SMA-HI ......................................................................................................................44 
8.6. 
Pharmacokinetic Analysis ..........................................................................................45 
8.7. 
Statistical Analysis of Pharmacokinetic Data .............................................................45 
8.8. 
Interim Analysis and Dose Level Review ..................................................................45 
8.9. 
Statistical Software .....................................................................................................46 
8.10. 
Changes in Statistical Methods ...................................................................................46 
9. 
ADMINISTRATIVE ASPECTS ................................................................................47 
9.1. 
Change in Protocol .....................................................................................................47 
9.2. 
Initiation Visit .............................................................................................................47 
9.3. 
Disclosure ...................................................................................................................47 
9.4. 
Monitoring ..................................................................................................................47 
9.5. 
Institutional Review Board .........................................................................................47 
9.6. 
Informed Consent .......................................................................................................48 
9.7. 
Records .......................................................................................................................48 
9.8. 
Reference to Declaration of Helsinki/Basic Principles ..............................................48 
10. 
REFERENCES ...........................................................................................................49 
APPENDIX A. SCHEDULE OF EVENTS ................................................................................50 
APPENDIX B. CYP3A4 INHIBITORS AND CYP3A4 INDUCERS .......................................51 
APPENDIX C. LIVER SAFETY MONITORING AND ASSESSMENT.................................52 
 
 
 


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LIST OF TABLES 
Table 1: 
CY 5011 – Treatment Emergent Adverse Events (≥2 occurrences) ...........................13 
Table 2: 
CY 5012 Study Design and Dosing Regimen ............................................................13 
Table 3: 
CK-2127107 PK Parameters after the Last Dose on Day 10/17 (Study 
CY 5012) ....................................................................................................................14 
Table 4: 
CY 5021 Study Design ...............................................................................................17 
Table 5: 
Visit Windows ............................................................................................................29 
Table 6: 
Pharmacokinetic (PK) Samples ..................................................................................30 
Table 7: 
Study Drug ..................................................................................................................34 
 
LIST OF FIGURES 
Figure 1: 
Study Design ...............................................................................................................18 
Figure 2: 
CY 5013: Increases in Force during Nerve Stimulation in Healthy 
Volunteers ...................................................................................................................20 
 
 


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STUDY IDENTIFICATION 
Sponsor 
 
 
 
 
 
 
 
Cytokinetics, Inc. 
280 East Grand Avenue 
South San Francisco, California 94080 
(650) 624-3000 (Main Telephone) 
(650) 624-3010 (Main Facsimile) 
 
Sponsor’s Study Contact 
Jacqueline Lee 
Director, Clinical Operations 
Cytokinetics, Inc. 
jlee@cytokinetics.com 
(650) 624-3017 (Office Telephone) 
(650) 291-5533 (Mobile Telephone) 
(650) 624-3225 (Office Facsimile) 
 
 Sponsor’s Medical Monitor  
 
 
 
 
Stacy Rudnicki, MD 
Director, Clinical Research & Development 
Cytokinetics, Inc. 
srudnicki@cytokinetics.com 
(650) 624-3269 (Office Telephone) 
(650) 515-2524 (Mobile Telephone) 
 
Lead Investigator 
John W. Day, MD, PhD 
Professor of Neurology and Pediatrics 
Director, Division of Neuromuscular Medicine 
Stanford University School of Medicine 
jwday@stanford.edu 
(650) 725-4341 (Office Telephone) 
(612) 396-2916 (Mobile Telephone) 
 
Study Site 
Multi-Center 
 
 
 


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INVESTIGATOR PROTOCOL AGREEMENT PAGE 
 
I agree: 
• To assume responsibility for the proper conduct of the study at this site. 
• To conduct the study in compliance with this protocol, any future amendments, and 
with any other study conduct procedures provided by Cytokinetics. 
• Not to amend the protocol without agreement, prior review, and written approval 
from the Institutional Review Board (IRB) except where necessary to eliminate an 
immediate hazard to the patients. 
• That I am thoroughly familiar with the appropriate use of the investigational 
product(s), as described in this protocol and any other information provided by the 
Sponsor including, but not limited to, the following: the current Investigator’s 
Brochure (IB) or equivalent document. 
• That I am aware of, and will comply with, “Good Clinical Practices” (GCP) and all 
applicable regulatory requirements. 
• To ensure that all persons assisting me with the study are adequately informed about 
the Cytokinetics investigational product(s) and of their study-related duties and 
functions as described in the protocol. 
• That I have been informed that certain regulatory authorities require the Sponsor to 
obtain and supply, as necessary, details about the Investigator’s ownership interest in 
the Sponsor or the investigational product, and more generally about his/her financial 
ties with the Sponsor.  Cytokinetics will use and disclose the information solely for 
the purpose of complying with regulatory requirements. 
Hence I: 
• Agree to supply Cytokinetics with any necessary information regarding ownership 
interest and financial ties (including those of my spouse and dependent children); 
• Agree to promptly update this information if any relevant changes occur during the 
course of the study and for one year following completion of the study; and 
• Agree that Cytokinetics may disclose any information it has about such ownership 
interests and financial ties to regulatory authorities. 
 
 
Investigator Name: 
______________________________________________________ 
 
Investigator Signature: ________________________________  
Date: ________________  


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LIST OF ABBREVIATIONS AND DEFINITIONS OF TERMS 
The following abbreviations and specialist terms are used in this study protocol. 
Abbreviation or Specialist Term 
Explanation 
6MWT 
6-minute walk test 
AE  
adverse event 
ALT 
alanine aminotransferase (alanine transaminase) 
ANCOVA 
analysis of co-variance 
ANOVA 
analysis of variance 
API 
active pharmaceutical ingredient 
AST 
 
aspartate aminotransferase (aspartate transaminase) 
AT 
aminotransferase 
AUC 
area under the plasma concentration-time curve 
BID 
twice daily 
BDI 
Beck Depression Inventory 
BMI 
body mass index 
CBC 
complete blood count 
CFR 
Code of Federal Regulations 
CI 
confidence interval 
Cmax 
 
maximum observed plasma concentration 
Ctrough 
pre-dose plasma concentration 
eCRF  
electronic case report form 
CTCAE 
Common Terminology Criteria for Adverse Events 
CV 
coefficient of variation 
DMC 
Data Monitoring Committee 
ECG 
 
electrocardiogram 
FDA 
 
Food and Drug Administration 
FVC 
forced vital capacity 
GCP 
 
Good Clinical Practices 
HFMS-E 
Hammersmith Functional Motor Scale-Expanded 
IB      
Investigator’s Brochure 
ICF 
informed consent form 
ICH 
 
International Conference on Harmonisation 
INR 
International normalized ratio 


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Abbreviation or Specialist Term 
Explanation 
IUD 
intrauterine device 
IUS 
intrauterine system 
IRB 
Institutional Review Board  
LA-CRF 
liver abnormality case report form 
LFT 
liver function tests 
MedDRA 
Medical Dictionary for Regulatory Activities 
MEP 
maximum expiratory pressure 
MIP 
maximum inspiratory pressure 
NASH 
non-alcoholic steatohepatitis 
NCI 
National Cancer Institute 
NOAEL          
no observed adverse effects level 
PD                    
pharmacodynamic 
PDS 
pharmacodynamic analysis set 
PET 
polyethylene terephthalate 
PIBA 
press-in-bottle adapters 
PK  
pharmacokinetic 
PKS 
pharmacokinetics analysis set 
QTc 
corrected QT interval 
RULM 
revised upper limb module 
SAE 
serious adverse event 
SAS 
safety analysis set 
SD 
standard deviation 
SDD 
spray dried dispersion 
SMA 
spinal muscular atrophy 
SMA-HI 
Spinal Muscular Atrophy-Health Index 
TBL 
total bilirubin 
TEAE 
treatment emergent adverse event 
TUG 
timed up and go 
UA  
urinalysis 
ULN 
upper limit of normal 
WBC 
white blood cells 
WHO              
World Health Organization 


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1. 
INTRODUCTION 
1.1. 
Background 
CK-2127107, a small molecule activator of the fast skeletal muscle troponin complex, is being 
developed to improve skeletal muscle function in disease states associated with muscular 
weakness and/or muscle fatigue.  CK-2127107 slows the rate of calcium release from the 
regulatory troponin complex of fast skeletal muscle fibers resulting in a sensitization of the 
sarcomere to calcium.  It is highly selective for fast skeletal muscle troponin, with similar 
potencies in muscle fibers from preclinical species and human fast skeletal muscle fibers; 
accordingly, it is much less effective in activating slow skeletal muscle and cardiac muscle.  In 
intact rat skeletal muscle in vivo, CK-2127107 increases muscle force at sub-maximal nerve 
stimulation frequencies, increases muscle power, and decreases muscle fatigability.  Dosing of 
CK-2127107 increased running performance in a preclinical rat model of heart failure produced 
by myocardial infarction.   
Spinal Muscular Atrophy (SMA) is a severe neuromuscular disease that occurs in 1 in every 
6,000 to 10,000 live births each year and is one of the most common fatal genetic disorders. 
Spinal muscular atrophy manifests in various degrees of severity as progressive muscle weakness 
resulting in respiratory and mobility impairment.  There are four types of SMA, named for time 
of the initial onset of muscle weakness and related symptoms: Type I (Infantile), Type II 
(Intermediate), Type III (Juvenile) and Type IV (Adult onset).  Life expectancy and disease 
severity varies by type of SMA from Type I, who have the worst prognosis and a life expectancy 
of no more than 2 years from birth, to the Type IV, who have a normal life span but with gradual 
weakness in the proximal muscles of the extremities resulting in mobility issues.  Few treatment 
options exist for these patients, resulting in a high unmet need for new therapeutic options to 
address symptoms and modify disease progression. 
In mice with late or “adult” onset SMA, a compound with the same mechanism of action as 
CK-2127107, tirasemtiv, increased muscle force at submaximal nerve stimulation frequencies 
and increased muscle work during repetitive stimulation.  Mice were able to hang longer from an 
inverted grid following dosing with tirasemtiv. Thus, the pharmacological profile of 
CK-2127107 is novel approach to the treatment of SMA in that it is a direct functional activator 
of fast skeletal muscle; as such, it could benefit patients with a wide variety of disorders 
characterized by muscular weakness and/or muscle fatigue including SMA.  
This clinical protocol is a double-blind, randomized, placebo-controlled, multiple dose study to 
evaluate the pharmacokinetics (PK) and pharmacodynamics (PD) of CK-2127107 in patients 
with SMA. 
1.2. 
Overview of CK-2127107 Nonclinical Studies 
CK-2127107 was evaluated in a series of nonclinical safety studies in rat and monkey, including 
single- and repeat-dose (28 days and 13 weeks) toxicity studies, safety pharmacology studies, 
and a core battery of genotoxicity tests.   
The toxicology studies conducted in rat and monkey with CK-2127107 demonstrated an 
acceptable safety profile, and supported Phase 1 clinical trials in healthy volunteers.  Based on in 
vitro metabolism studies, the monkey was selected as the non-rodent toxicology species since the 


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metabolism of CK-2127107 in monkeys was qualitatively comparable to that in humans, in 
particular with respect to the production of CK-2127106, an identified inactive metabolite of 
CK-2127107.  In definitive 28-day and 13-week repeat-dose toxicity and toxicokinetic studies, 
the no observed adverse effect level (NOAEL) for CK-2127107 (formulated from a spray dried 
dispersion (SDD) containing 50% CK-2127107) was 600 mg/kg/day, the highest dose level 
evaluated, in both rats and monkeys. 
The core battery of safety pharmacology studies conducted with CK-2127107 indicated no 
functional changes in vital organs or systems which are likely to be of importance in clinical 
studies of CK-2127107. 
The results of the bacterial reverse mutation, in vitro cytogenetic and in vivo rodent bone marrow 
micronucleus studies conducted with CK-2127107 indicated a lack of genotoxic hazard.  
CK-2127106 was equivocal in an in vitro cytogenetic assay conducted in human peripheral 
blood lymphocytes; in this assay, a statistically significant increase in the incidence of aberrant 
cells, compared to the vehicle control, was noted only at the highest CK-2127106 concentration 
evaluated (386 µg/mL) in the 21-hour regime. 
Additional information concerning the pharmacology, PK, and toxicology of CK-2127107 is 
available in the Investigator’s Brochure (IB). 
1.3. 
Overview of CK-2127107 Clinical Studies 
Five Phase 1 studies have been completed to date in healthy subjects, a first in human, single 
ascending dose study (Study CY 5011), a multiple ascending dose study in young vs. elderly 
subjects (CY 5012), a PK/PD study (CY 5013), a formulation study (CY 5014) and a food effect 
study (CY 5015). 
CY 5011, a phase 1, double-blind, randomized, placebo-controlled, single ascending dose study 
of CK-2127107 in healthy male volunteers, is complete. The primary objective of CY 5011 was 
to determine the safety and tolerability of single doses of CK-2127107 administered orally as an 
amorphous SDD formulation to healthy male volunteers. The secondary objective of CY 5011 
was to evaluate the PK profile of single doses of CK-2127107 and its inactive metabolite, 
CK-2127106.  Volunteers received oral doses up to 4000 mg of CK-2127107 in a crossover 
fashion, which was generally well tolerated and no serious adverse events (SAEs) were reported.  
The most common non-serious adverse event at the highest dose of 4000 mg was grade 1 (mild) 
dizziness which resolved spontaneously and in all cases resolved within 24 hours of onset. One 
subject described a “lightheaded” sensation while others described their dizziness as an 
intermittent fleeting sensation of dizziness with movement of the head.  Table 1 summarizes the 
most common treatment emergent adverse events (TEAEs).  Exposure to CK-2127107 ranged 
from 150 to 10,000 ng/mL for maximum observed plasma concentration (Cmax) and 860 to 
142,000 ng*hr/mL for AUC0-inf, over the dose range of 30 to 4000 mg.  Mean exposure to the 
inactive metabolite, CK-2127106, ranged from 4% to 19% of CK-2127107 across all doses as 
measured by area under the plasma concentration-time curve (AUC).  Linear dose-proportional 
PK was observed up to 4000 mg of CK-2127107.  


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Table 1: 
CY 5011 – Treatment Emergent Adverse Events (≥2 occurrences) 
Adverse 
Event 
Placebo 
N=35 
n(%) 
30 mg 
N=8 
n(%) 
90 mg 
N=8 
n(%) 
270 mg 
N=8 
n(%) 
500 mg 
N=8 
n(%) 
1000 mg 
N=8 
n(%) 
1500 mg 
N=8 
n(%) 
2250 mg 
N=8 
n(%) 
3000 mg 
N=7 
n(%) 
4000 mg 
N=7 
n(%) 
Dizziness 
0 
0 
0 
0 
0 
0 
0 
3(37.5) 
2(28.6) 
4(57.1) 
Headache 
1(2.9) 
0 
0 
0 
0 
1(12.5) 
1(12.5) 
1(12.5) 
2(28.6) 
3(42.9) 
Visual 
Impairment 
1(2.9) 
0 
0 
0 
0 
0 
0 
1(12.5) 
0 
1(14.3) 
Nausea 
0 
0 
0 
0 
0 
0 
0 
0 
1(14.3) 
1(14.3) 
Cough 
0 
0 
0 
0 
1(12.5) 
0 
0 
0 
1(14.3) 
0 
Diarrhea 
0 
0 
0 
0 
0 
1(12.5) 
0 
1(12.5) 
0 
0 
 
CY 5012, a phase 1, double-blind, randomized, placebo-controlled, multiple ascending dose, 
parallel group study to evaluate the safety, tolerability, and PK of CK-2127107 in healthy young 
and elderly male and female volunteers, is complete.  The objectives of this study were to 
determine the safety and tolerability of CK-2127107 in suspension after multiple oral doses in 
healthy young and elderly men and women and to determine the PK profile of the parent 
compound and its inactive metabolite, CK-2127106, after a single dose and at steady-state, as 
well as any PK differences between young vs. elderly subjects.  It consisted of three cohorts of 
12 young (age 18-55) healthy subjects each, and two cohorts of 12 elderly (age 65-85) healthy 
subjects each.  
A total of 59 subjects were enrolled in the study and were randomized as follows: 20 to placebo, 
16 to the CK-2127107 300 mg dose, and 23 to the CK-2127107 500 mg dose (see Table 2 for the 
study design and dosing regimens).  Fifty-eight subjects (98.3%) completed the study as planned, 
and one subject (1.7%) withdrew consent after receiving one dose of CK-2127107 500 mg but 
did not experience any adverse events (AEs).  Although steady-state was essentially achieved by 
Day 10 for CK-2127107, this was not the case for the metabolite, CK-2127106.  Hence, a fifth 
cohort was added to allow a longer dosing duration of 17 days.  
Table 2: 
CY 5012 Study Design and Dosing Regimen 
Cohort 
Age Group 
CK-2127107 or placebo 
Randomized 2:1 
1 
18-55 
300 mg QD on Days 1 and 10 
300 mg BID on Days 2–9 
2 
65-85 
300 mg QD on Days 1 and 10 
300 mg BID on Days 2–9 
3 
18-55 
500 mg QD on Days 1 and 10 
500 mg BID on Days 2–9 
4 
65-81 
500 mg QD on Days 1 and 10 
500 mg BID on Days 2–9 
5 
18-55 
500 mg QD on Days 1 and 17 
500 mg BID on Days 2–16 


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At steady-state, the median tmax of CK 2127107 was 2 to 3 h and the mean t1/2 ranged from 10.5 
to 12.8 h.  Exposure (Cmax and AUC) for CK 2127107 increased with dose, and slope estimates 
suggested a somewhat higher than dose proportional exposure as the dose increased from 300 to 
500 mg.  Cmax and AUC0-12 for CK 2127107 were higher at steady-state than after a single dose 
on Day 1 with an accumulation ratio of approximately 3 to 4 at 300 mg and 4 to 5 at 500 mg.  
Exposure to the inactive metabolite, CK-2127106, was also higher at steady-state than after a 
single dose with mean accumulation ratios >20, consistent with its longer t1/2 of about 40 h.  
Average CK-2127107 drug exposure tended to be somewhat higher in women than in men but 
there were no differences in the PK of CK-2127107 between the young vs. elderly age group.  
On the other hand, mean exposure to the metabolite, CK-2127106, was higher in elderly 
subjects. 
Table 3: 
CK-2127107 PK Parameters after the Last Dose on Day 10/17 (Study 
CY 5012) 
 
Cmax (ng/mL) 
Geometric Mean 
CV (%) 
AUC0-12 (h×ng/mL) 
Geometric Mean 
CV (%) 
t1/2  (h) 
Geometric Mean 
CV (%) 
tmax (h) 
Geometric Mean 
CV (%) 
Elderly  
300 mg (n=8) 
3369.16 
22.33 
26516.61 
26.39 
7.72 
82.06 
2.33 
21.22 
Young 
300 mg (n=8) 
3329.17 
30.98 
28101.65 
37.25 
9.15 
59.08 
3.17 
23.05 
Elderly  
500 mg (n=7) 
6299.46 
29.65 
53899.94 
34.33 
11.61 
51.82 
2.99 
20.71 
Young  
500 mg (n=15) 
7300.43 
39.54 
65497.98 
48.19 
10.38 
49.51 
3.20 
24.69 
There were no SAEs or discontinuations due to an AE.  Four of the 20 subjects on placebo 
(20.0%) and 17 of the 39 subjects on CK-2127107 (43.6%) had a TEAE.  Among the 17 subjects 
treated with CK-2127107 who had an AE, five had received the 300 mg dose and 12 had 
received the 500 mg dose.  TEAEs reported for >1 subject on active drug were vessel puncture 
site pain (in two subjects on 500 mg), liver enzyme elevation (three subjects on 500 mg and one 
on placebo), diarrhea (three on 300 mg and one on placebo), and headache (two on 300 mg and 
one on 500 mg).  An additional four subjects (one treated with CK-2127107 300 mg and three 
treated with CK-2127107 500 mg) had at least one out-of-range value for a liver enzyme that 
was not considered to be an AE. Of the total of eight subjects with an abnormal liver function 
test, some of whom also had modest bilirubin elevations, none had values that met Hy’s Law 
criteria.    
While most other laboratory tests during the study generally remained consistent with baseline 
values, serum creatinine values increased following CK-2127107 dosing.  On Day 11, subjects 
treated with CK-2127107 had a mean increase from baseline in serum creatinine of 36.4 μmol/L 
compared with a mean change of 4.9 μmol/L for subjects treated with placebo. Changes in serum 
creatinine were generally similar between the two age groups. The elevated values returned 
toward normal and there were no associated symptoms or AEs reported. All abnormal values 
were deemed not clinically significant by the investigator. A possible explanation for these 


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findings is that CK-2127107 or one of its metabolites, may interfere with either the creatinine 
assay or may inhibit the renal tubular secretion of creatinine, as has been reported with other 
drugs. 
Vital signs and electrocardiogram (ECG) intervals centrally read at a core laboratory generally 
remained consistent with baseline values. There were no abnormal findings during physical and 
neurological examinations.  
CY 5013, a phase 1, double-blind, randomized, placebo-controlled, single dose, 4-period 
crossover study to evaluate the PK and PD of CK-2127107 in healthy male volunteers, is 
complete.  The primary objective of this study was to determine the force-frequency profile in 
relationship to dose and plasma concentrations of CK-2127107 in healthy men.    Twelve healthy 
men received placebo, CK-2127107 300 mg, 1000 mg and 3000 mg, each dose separated by a 7-
day washout period.  The sequence of study drug administration was randomized.   
PK and PD at matched time points were obtained after each dosing regimen.  The PD readout 
obtained at each dose level consisted of a standardized determination of the force-frequency 
relationship in the tibialis anterior muscle after peroneal nerve stimulation (Hotz, Wilson et al. 
1997; Mela, Veltink et al. 2001; Baudry and Duchateau 2004; Hansen, Saikali et al. 2014).  
There were no SAEs or discontinuations due to an AE.  Ten of the 16 subjects (62.5%) had a 
TEAE, two subjects (12.5%) on placebo, three subjects (18.8%) on 300 mg, five subjects 
(31.3%) on 1000 mg, and seven subjects (43.8%) on 3000 mg.  Commonly reported TEAEs were 
headache (6 subjects [37.5%]) and dizziness (4 subjects [25.0%]); all other AEs were reported 
for one or two subjects.  None of the AEs were classified as severe. 
CY 5014, a phase 1, randomized, open-label, 2-period crossover study of two oral forms of 
CK-2127107 in healthy male volunteers, is complete.  The primary objective of CY 5014 was to 
assess the relative oral bioavailability and PK profiles of the stabilized amorphous form of 
CK-2127107 formulated as an SDD and the crystalline form of CK-2127107 API in suspension 
following single doses of 300 and 1000 mg.  Volunteers received all planned doses of 
CK-2127107 SDD in suspension and API in suspension and no SAEs were reported.  Exposure 
following dosing of the crystalline API compared to the SDD form was similar at the 300 mg 
dose but was decreased about 33% at the 1000 mg dose.  The crystalline form was selected for 
further use in clinical studies.  Other results of this study are summarized in the IB.  
CY 5015, a phase 1, open-label, randomized, single dose study to evaluate the PK in a fed and 
fasted state of an oral tablet form of CK-2127107 in healthy male volunteers, is complete.  The 
objectives of this study were to assess the relative oral bioavailability and PK profile of the 
crystalline form of CK-2127107 API formulated as an immediate release, 250 mg strength tablet 
(API tablet) or in a suspension (API suspension) as well as to determine the effect of a high fat 
breakfast on the PK of CK-2127107 healthy men. 
There were no SAEs and no subject discontinued due to an AE.  A significant food effect was 
demonstrated as exposure (Cmax and AUC0-inf) increased 2.6- and 1.6-fold, respectively, when 
tablets (250 mg x 2 [500 mg total dose]) were administered with food.  Other results of this study 
are summarized in the IB. 


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2. 
STUDY OBJECTIVES 
2.1. 
Primary Objective 
The primary objective of this study is to determine the potential PD effects of CK-2127107 
suspension after multiple oral doses in patients with SMA.   
2.2. 
Secondary Objectives 
The secondary objectives of this study are:  
• To evaluate the safety and tolerability of multiple doses of CK-2127107 administered 
orally to SMA patients 
• To evaluate the PK of CK-2127107 administered orally to SMA patients 


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3. 
STUDY OVERVIEW 
3.1. 
Study Design 
This is a Phase 2, double-blind, randomized, placebo-controlled, multiple dose, study of 
CK-2127107 in two sequential ascending dose cohorts of patients with Type II, Type III, or Type 
IV SMA.  Within each cohort, randomization will be stratified by ambulatory status versus non-
ambulatory status. 
The CK-2127107 Granules for Oral Suspension will be constituted by the site pharmacy for 
patient use as an oral suspension.  
At least 72 male or female patients (two cohorts of at least 36 patients each) will receive twice 
daily doses of CK-2127107 suspension for 8 weeks.   
An overview of the general study design is provided in Table 4: 
 
Table 4: 
CY 5021 Study Design 
Cohort 
N 
CK-2127107 Doses 
1 
18 
Group 1: Approximately 18 ambulatory patients ≥ 12 years of age with Type III 
or Type IV SMA randomized 2:1 to CK-2127107 150 mg versus placebo 
single dose on Day 1 and then twice daily (BID) for remainder of 8 
weeks 
18 
Group 2: Approximately 18 non-ambulatory patients ≥ 12 years of age with Type 
II or Type III SMA randomized 2:1 to CK-2127107 150 mg versus 
placebo single dose on Day 1 and then twice daily (BID) for remainder 
of 8 weeks 
After 30 patients in Cohort 1 have received at least one dose of study drug and have either completed 
the End of Week 8 visit or have permanently discontinued study drug, the safety and PK data available 
at that time from Cohort 1 will be reviewed, to confirm the dose level or reduce the dose level of 
CK-2127107 to be administered in Cohort 2 (Section 8.8)  
2 
18 
Group 1: Approximately 18 ambulatory patients ≥ 12 years of age with Type III 
or Type IV SMA randomized 2:1 to CK-2127107 450 mg (or lower) 
versus placebo single dose on Day 1 and then twice daily (BID) for 
remainder of 8 weeks 
18 
Group 2: Approximately 18 non-ambulatory patients ≥ 12 years of age with Type 
II or Type III SMA randomized 2:1 to CK-2127107 450 mg (or lower) 
versus placebo single dose on Day 1 and then twice daily (BID) for 
remainder of 8 weeks 
*Ambulatory and Non-Ambulatory patients are defined in the Inclusion Criteria (Section 4.1)  
 
Screening for the study will be no more than 21 days in duration. Once patients have completed 
screening and are considered eligible for the appropriate cohort, they will be randomized as 
described above, stratified by ambulatory versus non-ambulatory.  Consequently, at the 
conclusion of the study, approximately 24 patients (12 ambulatory and 12 non-ambulatory) will 
have been randomized to placebo, approximately 24 patients to CK-2127107 150 mg BID (also 


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divided equally between ambulatory and non-ambulatory patients), and approximately 24 to 
CK-2127107 450 mg BID (or lower, pending the review of data from Cohort 1). 
 
 
There will be a total of seven study visits for patients in each cohort: 
• Screening 
• Start of Dosing (Day 1) 
• End of Week 1 (Day 8) 
• End of Week 2 (Day 15) 
• End of Week 4 (Day 29) 
• End of Week 8 (Day 57) 
• Follow-Up Visit (4 weeks after last dose of study drug) 
 
Figure 1: 
Study Design 
 
 
For Cohort 1, on Day 1, patients in Group 1 and Group 2 will be randomized to receive a single 
dose on Day 1 followed by twice daily doses of 150 mg CK-2127107 suspension or placebo. 
After 30 patients in Cohort 1 have received at least one dose of study drug and have either 
completed the End of Week 8 visit or have permanently discontinued study drug, the safety and 
PK data available at that time from Cohort 1 will be reviewed, to confirm the dose level or 
reduce the dose level of CK-2127107 to be administered in Cohort 2. 
For Cohort 2, on Day 1, patients in Group 1 and Group 2 will be randomized to receive a single 
dose on Day 1 followed by twice daily doses of 450 mg (or lower) CK-2127107 suspension or 
placebo. 
A Follow-Up Visit will occur 4 weeks after the patient’s final dose of study drug.  


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Pharmacodynamic measures, vital signs, ECGs, and clinical laboratory evaluations will be 
performed at Screening and at specified times during each cohort.  Patients will be evaluated at 
each study visit for signs and symptoms of intolerance to study drug.   
3.2. 
Study Rationale 
CK-2127107 is being investigated as a potential new therapy for improving muscular weakness 
and muscle fatigue in patients with SMA.  This is the first study being conducted in these 
patients and is designed to assess the effect of 8 weeks of dosing of CK-2127107 on measures of 
muscle function in both ambulatory and non-ambulatory patients with SMA.  The plasma 
concentration of CK-2127107 will be measured at selected time points during the course of 
dosing and the plasma concentrations obtained in this study may be used to conduct exposure-
response analysis.  The results of this study will inform further clinical development of this 
mechanism of action in SMA.  
3.3. 
Dose Rationale 
CK-2127107 will be administered as an oral suspension at a dose of 150 mg twice daily in 
Cohort 1 and 450 mg (or lower, pending the review of data from Cohort 1) twice daily in Cohort 
2.  At steady-state, Cmax at the lower dose is estimated to be ~2 μg/mL and at the higher dose 
Cmax is estimated to be ~6 μg/mL. In Study CY 5013, plasma concentrations were sampled at the 
time of nerve stimulation in order to construct a PK/PD relationship. Figure 2 shows that these 
plasma concentrations produce significant concentration-dependent increases in force at 
submaximal stimulation frequencies with the largest force increases at 10 Hz.  The doses 
selected in the current study should produce plasma concentrations that span the PD range 
measured in this healthy volunteer population. 
In the current study, a dose escalating design will be employed; the PK in Cohort 1 at the lower 
dose will be determined prior to dosing the higher dose in Cohort 2.  A dose adjustment 
downward in Cohort 2 may be employed if the dose in Cohort 1 produces exposures that are 
higher than anticipated. 


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Figure 2: 
CY 5013: Increases in Force during Nerve Stimulation in Healthy Volunteers 
 
The safety, tolerability, and PK of CK-2127107 were previously explored in the Phase 1.  Single 
doses of 30 to 4000 mg were well tolerated by the healthy male subjects enrolled in CY 5011 and 
no maximum tolerated dose was established.  Similarly, 10-17 day courses of 300 mg and 500 
mg twice daily were well tolerated by young and elderly healthy men and women although eight 
subjects (1 on placebo and 7 on CK-2127107) had a transient elevation of liver enzymes after 
approximately 10 days of dosing, none of which satisfied Hy’s Law criteria.  The IB contains 
further details of these cases.  Consequently, this study will monitor the liver enzymes of patients 
following 2 weeks of dosing to allow for drug discontinuation if deemed necessary by the 
clinical investigator. 
Based on this prior clinical experience, the doses selected for this study are expected to be well 
tolerated and the information obtained in this study will guide the selection of doses in future 
clinical studies of patients. 


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4. 
STUDY POPULATION 
Approximately 72 patients who fulfill the eligibility criteria will be enrolled in the study. 
4.1. 
Inclusion Criteria 
Patients who meet all of the following criteria may be included in the study: 
1. Able to comprehend and willing to sign an Informed Consent Form (ICF) for patients 18 
years of age and older.  For patients less than 18 years of age, parent(s)/legal guardian(s) 
of patients must provide written informed consent prior to participation in the study and 
informed assent will be obtained from minors at least 12 years of age when required by 
regulation. 
2. Males or females with genetically confirmed diagnosis of SMA who are Type II, III or IV 
and at least 12 years of age 
3. Ambulatory patients, once having achieved a standing position independently, must be 
able to complete at least one lap in the 6-minute walk test (at least 50 meters) within 6 
minutes without assistance 
4. Non-ambulatory patients (defined as individuals who are effectively requiring a 
wheelchair for all mobility needs; they may be able to stand or walk short distances, but 
unable to walk 50 meters without assistance in 6 minutes).  Non-ambulatory patients 
must be able to tolerate an upright sitting position, with support, continuously for 3 hours 
5. Forced vital capacity (FVC) > 20% predicted at screening 
6. Hammersmith Functional Motor Scale-Expanded (HFMS-E) score ≥ 10 and ≤ 54 at 
screening 
7. Contracture of the elbow flexion and knee flexion ≤ 90 degrees 
8. Pre-study clinical laboratory findings within the normal range or, if outside the normal 
range, deemed not clinically significant by the Investigator 
9. Able to swallow an oral suspension and in the opinion of the Investigator, is expected to 
continue to be able to do so for the duration of the trial.  Administration via a feeding 
tube is not allowed. 
10. Male patients who have reached puberty must agree to do either of the following from 
Screening until 10 weeks after the last dose of the investigational product unless they 
have had a vasectomy and confirmed sperm count is zero: 
• Abstain from sexual intercourse, OR 
• If having heterosexual intercourse, must use a condom and their female partners who 
are of childbearing potential must use a highly effective contraception method* 
11. Female patients who have had their first period will be considered of childbearing 
potential unless they are anatomically and physiologically incapable of becoming 
pregnant.   If of childbearing potential, the female patients must: 
• Have a negative urine/serum pregnancy test at Screening AND 


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• Abstain from heterosexual intercourse from Screening until 10 weeks after the last 
dose of investigational product, OR 
− If having heterosexual intercourse, must use a highly effective contraception 
method* and require the male partners to use a condom from Screening until 10 
weeks after the last dose of investigational product 
*Highly effective contraception methods include: 
• Established use of oral, injected or implanted hormonal methods of contraception 
• Placement of an intrauterine device (IUD) or intrauterine system (IUS) 
12. Male patients must agree to refrain from sperm donation from Screening until 10 weeks 
after the final study drug administration 
4.2. 
Exclusion Criteria 
Any of the following will exclude potential patients from the study: 
1. History of significant hypersensitivity, intolerance, or allergy to any drug compound, 
food, or other substance, unless approved by the Investigator 
2. Hospitalization within 2 months of Screening  
3. History of stomach or intestinal surgery or resection that would potentially alter 
absorption and/or excretion of orally administered drugs (appendectomy, hernia repair, 
and/or cholecystectomy will be allowed) 
4. A clinically significant illness, including but not limited to cardiac, pulmonary, GI, 
musculoskeletal, or psychiatric illness, that might interfere with the patient’s ability to 
comply with study procedures or that might confound the interpretation of clinical safety 
or efficacy data, within 4 weeks of Screening 
5. History of alcoholism or drug addiction within 2 years prior to Screening 
6. History of smoking more than 10 cigarettes (or equivalent amount of tobacco) per day 
within 3 months prior to Screening 
7. Patient has used a strong CYP3A4 inhibitor within 7 days prior to first dose of study drug 
or a strong CYP3A4 inducer within 14 days prior to first dose of study drug  
8. Any other medical condition that would interfere with performance of testing including 
(but not limited to) significant joint pain or arthritis limiting mobility, and chronic 
neuromuscular pain sufficient to require ongoing analgesic medication 
9. Participation by two people at the same time that are living in the same household 
10. Taking any other investigational study drug as a clinical trial participant, within 30 days 
or five half-lives, whichever is greater, prior to Screening 
11. An ALT or AST greater than 2-fold the upper limit of normal (ULN) or has total bilirubin 
greater than the ULN at screening.  These assessments may be repeated once at the 
investigator’s discretion (within the screening window) 


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12. Currently taking nusinersin, or has taken it in the past, or plans to take it during the 
course the study 


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5. 
STUDY PROCEDURES 
5.1. 
Screening 
A signed ICF will be obtained from each patient prior to performing any study-specific 
procedures. A copy of the ICF will be retained in the study file and a copy will be provided to 
the patient.  
The following screening procedures will be performed for all potential patients at a visit 
conducted within 21 days of study entry: 
1. Demographic data, including tobacco and alcohol usage 
2. Medical history, including review of concomitant medications 
3. Review of inclusion/exclusion criteria 
4. Height, ulna length, body weight, and calculation of body mass index (BMI) 
5. Routine physical examination 
6. Neurological examination 
7. 12-lead ECG 
8. Vital signs, including oral temperature, heart rate and blood pressure measured after the 
patient has been resting for at least 3 minutes 
9. Clinical laboratory evaluations (collected after the patient has fasted), including complete 
blood count (CBC) and white blood cells (WBC) with differential, serum chemistries and 
urinalysis (UA) 
10. Pregnancy test for all females of childbearing potential 
11. Pulmonary function assessments 
12. Muscle strength measurements 
13. Hammersmith Functional Motor Scale-Expanded (HFMS-E) 
14. Revised upper limb module (RULM) 
15. Timed up and go (TUG) test (for ambulatory patients) 
16. 6-minute walk test (6MWT) (for ambulatory patients) 
17. Beck Depression Inventory (BDI®) FastScreen 
Once a patient is confirmed eligible to participate and before the first dose on Day 1, patients 
will be randomized to receive either CK-2127107 or placebo.  
5.2. 
First Dosing Day (Day 1) 
Patients will be instructed to have breakfast before coming to the clinic on Day 1.  Prior to study 
drug dosing on the morning of Day 1, the following procedures will be performed: 
1. 12-lead ECG  


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2. Vital signs, including heart rate and blood pressure measured after the patient has been 
resting for at least 3 minutes 
3. Weight 
4. Clinical laboratory evaluations, including CBC and WBC with differential, serum 
chemistries and UA 
5. PK blood sample 
6. Pulmonary function assessments 
7. Muscle strength measurements 
8. HFMS-E 
9. RULM 
10. TUG test (for ambulatory patients) 
11. 6MWT (for ambulatory patients) 
12. SMA-HI 
Following a 3-hour fast from food (not including water), patients will receive their first dose of 
study drug (CK-2127107 or placebo), and will be followed by a fast from food (not including 
water) for at least 1 hour post-dose.   
The following assessments will be performed after the first dose of study drug is given: 
13. PK blood samples at 1 and 3 hours post-dose  
14. AE/SAE evaluation and concomitant medication assessment (since last visit) 
15. BDI® FastScreen 
Patients will be given an adequate supply of study drug (CK-2127107 or placebo) to take twice 
daily for 2 weeks at home starting on Day 2 but will return to the clinic 1 week later at the end of 
Week 1.  A dosing diary will be provided for patients to record the date and time of twice daily 
study drug administration. 
5.3. 
End of Week 1 Visit 
Patients will be instructed to be fasting for at least 3 hours (not including water) when arriving at 
the clinic for the End of Week 1 Visit.  Prior to study drug dosing on the morning of the End of 
Week 1 Visit, the following procedures will be performed:  
1. Vital signs, including heart rate and blood pressure measured after the patient has been 
resting for at least 3 minutes 
2. Weight 
3. PK blood sample 
Patients will receive their morning dose of study drug (CK-2127107 or placebo), and will be 
followed by a fast from food (not including water) for at least 1 hour post-dose.  Patients will be 
reminded to bring their morning dose of study drug with them to take while at the clinic.  The 


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following assessments will be performed 1 hour after the morning dose of study drug is given 
and the patient has eaten:    
4. Pulmonary function assessments 
5. Muscle strength measurements 
6. HFMS-E 
7. RULM 
8. AE/SAE evaluation and concomitant medication assessment (since last visit) 
9. BDI® FastScreen 
Patients will have already been given their supply of study drug (CK-2127107 or placebo) to 
take twice daily at home until their next clinic visit at the end of Week 2.  A dosing diary will be 
provided for patients to record the date and time of twice daily study drug administration. 
5.4. 
End of Week 2 Visit 
Patients will be instructed to be fasting for at least 3 hours (not including water) when arriving at 
the clinic for the End of Week 2 Visit.  Prior to study drug dosing on the morning of the End of 
Week 2 Visit, the following procedures will be performed:  
1. 12-lead ECG 
2. Vital signs, including heart rate and blood pressure measured after the patient has been 
resting for at least 3 minutes 
3. Weight 
4. PK blood sample 
5. Clinical laboratory evaluations, including CBC and WBC with differential, serum 
chemistries and UA 
Patients will receive their morning dose of study drug (CK-2127107 or placebo), and will be 
followed by a fast from food (not including water) for at least 1 hour post-dose.  The following 
assessments will be performed 1 hour after the morning dose of study drug is given and the 
patient has eaten: 
6. Pulmonary function assessments 
7. Muscle strength measurements 
8. HFMS-E 
9. RULM 
10. Global assessments 
11. PK blood samples at 1 and 3 hours post-dose  
12. AE/SAE evaluation and concomitant medication assessment (since last visit) 
13. BDI® FastScreen 


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Patients will be given an adequate supply of study drug (CK-2127107 or placebo) to take twice 
daily for 2 weeks at home until their next clinic visit at the end of Week 4.  A dosing diary will 
be provided for patients to record the date and time of twice daily study drug administration. 
5.5. 
End of Week 4 Visit 
Patients will be instructed to be fasting for at least 3 hours (not including water) when arriving at 
the clinic for the End of Week 4 Visit.  Prior to study drug dosing on the morning of the End of 
Week 4 Visit, the following procedures will be performed: 
1. Vital signs, including heart rate and blood pressure measured after the patient has been 
resting for at least 3 minutes 
2. Weight 
3. PK blood sample 
Patients will receive their morning dose of study drug (CK-2127107 or placebo), and will be 
followed by a fast from food (not including water) for at least 1 hour post-dose.  The following 
assessments will be performed 1 hour after the morning dose of study drug is given and the 
patient has eaten: 
4. Pulmonary function assessments 
5. Muscle strength measurements 
6. HFMS-E 
7. RULM 
8. TUG test (for ambulatory patients) 
9. 6MWT (for ambulatory patients) 
10. AE/SAE evaluation and concomitant medication assessment (since last visit) 
11. BDI® FastScreen 
Patients will be given an adequate supply of study drug (CK-2127107 or placebo) to take twice 
daily for 2 weeks at home.  Study drug will need to be picked up in the clinic at the end of Week 
6 for 2 more weeks of dosing until the next clinic visit at the end of Week 8.  A dosing diary will 
be provided for patients to record the date and time of twice daily study drug administration. 
5.6. 
End of Week 8 Visit 
Patients will be instructed to be fasting for at least 3 hours (not including water) when arriving at 
the clinic for the End of Week 8 Visit.  Prior to the last dose of study drug on the morning of the 
End of Week 8 Visit, the following procedures will be performed:  
1. 12-lead ECG  
2. Vital signs, including heart rate and blood pressure measured after the patient has been 
resting for at least 3 minutes 
3. Weight 


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4. Clinical laboratory evaluations, including CBC and WBC with differential, serum 
chemistries and UA 
5. PK blood sample 
Patients will receive their last morning dose of study drug (CK-2127107 or placebo), and will be 
followed by a fast from food (not including water) for at least 1 hour post-dose.  The following 
assessments will be performed 1 hour after the last morning dose of study drug is given and the 
patient has eaten: 
6. Pulmonary function assessments 
7. Muscle strength measurements 
8. HFMS-E 
9. RULM 
10. TUG test (for ambulatory patients) 
11. 6MWT (for ambulatory patients) 
12. Global assessments 
13. SMA-HI 
14. PK blood samples at 1, 3 and 6 hours post-dose  
15. AE/SAE evaluation and concomitant medication assessment (since last visit) 
16. BDI® FastScreen 
5.7. 
Follow-Up Visit  
The following procedures will be performed at a Follow-Up Visit 4 weeks after each patient’s 
final dose of study drug: 
1. 12-lead ECG 
2. Vital signs including heart rate and blood pressure measured after the patient has been 
resting for at least 3 minutes 
3. Weight 
4. Abbreviated physical examination  
5. Neurological examination 
6. Clinical laboratory evaluations, including CBC and WBC with differential, serum 
chemistries and UA 
7. Pulmonary function assessments 
8. Muscle strength measurements 
9. HFMS-E 
10. RULM 
11. TUG test (for ambulatory patients) 


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12. 6MWT (for ambulatory patients) 
13. Global assessments 
14. AE/SAE evaluation and concomitant medication assessment (since last visit) 
15. BDI® FastScreen 
5.8. 
Visit Windows 
To aid in scheduling patient visits, the following study visit windows are considered acceptable 
(Table 5).  If a patient visit must be scheduled outside the visit window, the Medical Monitor 
should be contacted. 
Table 5: 
Visit Windows 
Visit 
Visit Window 
Screening 
Up to 21 days prior to Day 1 visit (as per protocol) 
Day 1 
First day of randomized, double-blind dosing 
End of Week 1 (Day 8) 
- 1 day 
End of Week 2 (Day 15) 
- 1 day 
End of Week 4 (Day 29) 
- 1 day 
End of Week 6 (Day 43) 
(for study drug pick-up only) 
- 1 day 
End of Week 8 (Day 57) 
+/- 1 day 
Follow-Up 
4 weeks after last dose of study drug +/- 3 days 
5.9. 
Diet Control 
All doses of study drug should be taken after fasting from food at least 3 hours and following the 
dose, patients should also fast from food (not including water) for at least 1 hour.  
Subjects will abstain from consuming grapefruit-containing foods or beverages from Day 1 
through the Follow-Up visit.   
5.10. 
Concomitant Medications 
All prescription drugs, over-the-counter medications, nutriceuticals and herbal remedies taken by 
the patient from the time of screening through the Follow-Up visit should be entered into the 
electronic case report form (eCRF). Medications that inhibit the activity of CYP3A4 should be 
avoided from 7 days before the start of dosing (Day 1) through the last day of dosing (End of 
Week 8).  Medications that induce the activity of CYP3A4 should be avoided from 14 days 
before the start of dosing (Day 1) through the last day of dosing (End of Week 8).  
5.11. 
Pharmacokinetic Sampling 
Blood samples for plasma PK analysis of CK-2127107 and its metabolites (if applicable) will be 
collected from patients at the nominal time points listed in Table 6.   
 


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Table 6: 
Pharmacokinetic (PK) Samples 
Day 
Sample Time Points 
Day 1 
Pre-dose (-30 min), 1 (+/-30 min) and 3 (+/-30 min) hours post-dose  
End of Week 1 
Pre-dose (-30 min) 
End of Week 2 
Pre-dose (-30 min), 1 (+/-30 min) and 3 (+/-30 min) hours post-dose 
End of Week 4 
Pre-dose (-30 min) 
End of Week 8 
Pre-dose (-30 min), 1 (+/-30 min), 3 (+/-30 min) and 6 (+/-30 min) hours post-dose 
If an indwelling catheter is used, saline flushes will be used. 
After completion of bioanalysis, remaining plasma samples will be retained consistent with the 
Sponsor’s standard operating procedures.  These samples will not be used for pharmacogenomic 
testing. 
5.12. 
Clinical Safety Assessments 
5.12.1. 
Clinical Laboratory Evaluations 
Clinical laboratory evaluations will be collected at Screening, Day 1, End of Week 2 visit, End 
of Week 8 visit, and at the Follow-Up Visit. 
5.12.2. 
12-Lead Electrocardiograms 
A 12-lead ECG, including ECG parameters of RR, PR, QRS, QT and QTc intervals as well as 
significant findings will be obtained at Screening, Day 1, End of Week 2 visit, End of Week 8 
visit, and at the Follow-Up Visit.   
When 12-lead ECGs are scheduled at the same time as blood draws, the order of evaluation will 
be ECG, vital signs, and then blood draw.   
5.12.3. 
Vital Signs 
Vital signs, including heart rate and blood pressure measured after the patient has been resting 
for at least 3 minutes will be obtained at every visit.  Resting vital signs (sitting or supine) should 
be collected the same way for each patient throughout their participation.  Oral temperature, 
height, and ulna length will also be obtained at the Screening visit. Weight will be obtained at 
each visit and BMI calculation only at Screening. 
When vital signs are scheduled at the same time as blood draws, the order of evaluation will be 
ECG, vital signs, and then blood draw.   
5.12.4. 
AE Assessments 
Patients will be asked how they are feeling from the first administration of study drug through 
the Follow-Up visit (see Section 7.2).  Patients will also be encouraged to voluntarily report any 
AEs they experience during the study. 


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5.12.5. 
Physical Examinations 
A routine physical examination will be performed at Screening, and an abbreviated physical 
examination (consisting of an examination of general appearance, skin, lungs, cardiovascular and 
abdomen) will be performed at the Follow-Up Visit.    
5.12.6. 
Neurological Examinations 
A neurological examination will be administered at Screening and at the Follow-Up Visit as 
described in the Study Manual. 
5.12.7. 
Beck Depression Inventory (BDI®) 
The BDI-FastScreen will be assessed at all study visits as described in the Study Manual. 
5.13. 
Clinical and Pharmacodynamic Outcome Measures 
5.13.1. 
Pulmonary Function Assessments 
The pulmonary function assessments in this study will include forced vital capacity (FVC), 
maximum inspiratory pressure (MIP), and maximum expiratory pressure (MEP).  Pulmonary 
function assessments will be performed at each study visit as described in the Study Manual.   
5.13.2. 
Hand-Held Dynamometry 
Muscle strength measurements of selected muscles will be performed using hand-held 
dynamometry (HHD) at each study visit as described in the Study Manual. 
5.13.3. 
Hammersmith Functional Motor Scale-Expanded (HFMS-E) 
The HFMS-E will be performed at each study visit as described in the Study Manual. 
5.13.4. 
Revised Upper Limb Module (RULM)  
The RULM will be performed at each study visit as described in the Study Manual. 
5.13.5. 
Timed Up and Go (TUG) Test 
The TUG test (for ambulatory patients only) will be performed at Screening, Day 1 visit 
(baseline), End of Week 4 visit, End of Week 8 visit, and at the Follow-Up Visit as described in 
the Study Manual. 
5.13.6. 
6-Minute Walk Test (6MWT) 
The 6MWT (for ambulatory patients only) will be performed at Screening, Day 1 visit (baseline), 
End of Week 4 visit, End of Week 8 visit, and at the Follow-Up Visit as described in the Study 
Manual. 
5.13.7. 
Global Assessments 
Both a patient and Investigator global assessment will be performed at the End of Week 2 visit, 
at the End of Week 8 visit, and at the Follow-Up Visit.  


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Patient Global Assessment: 
Patients will be asked to assess whether they feel the same, better, or worse as compared to how 
they felt pre-dose on Day 1. 
Investigator Global Assessment: 
The Investigator will assess whether the patient appears the same, better, or worse as compared 
to the patient’s status at pre-dose on Day 1. 
5.13.8. 
SMA-HI 
The SMA-HI (Health Index) is a patient reported outcome measure that will be performed at Day 
1 and End of Week 8 visits as described in the Study Manual. 
5.14. 
Removal of Patients from Study Participation 
Patients will be informed that they are free to withdraw from the study at any time and for any 
reason. The Investigator may remove a patient from the study if, in the Investigator's opinion, it 
is not in the best interest of the patient to continue the study. Patients may be discontinued due to 
the following: 
a. A change in compliance with inclusion/exclusion criteria that is clinically relevant 
and/or affects patient safety, and/or study assessments/objectives, etc. 
b. Occurrence of intolerable AEs 
c. Changes in vital signs, ECGs, or clinical laboratory results that, in the opinion of the 
Investigator, pose a significant health risk 
d. Intake of non-permitted concomitant medication that might affect patient safety or 
study assessments/objectives, etc. 
e. Cystatin C increase from baseline (defined as Day 1 or Screening if Day 1 value is 
not available) to ≥1.2 times the upper limit of normal 
Notification of discontinuation will immediately be made to the Sponsor’s Medical Monitor. In 
case of premature discontinuation of study drug, every effort should be made for the patient to be 
seen in the clinic as soon as possible following discontinuation of study drug to perform an early 
termination visit which should include the same assessments done at the Follow-Up visit 
(Section 5.7). The official Follow-Up visit should be conducted 4 weeks after patient’s final dose 
of study drug. The date the patient is withdrawn from the study and the reason for 
discontinuation will be recorded on the patient’s Case Report Form (CRF). All patients who 
prematurely discontinue from the study for AEs will be followed for up to 30 days, until the AE 
resolves, or until the unresolved AE is judged by the Investigator to have stabilized.  
The primary reason for a patient prematurely withdrawing from the study should be selected 
from the following categories and documented in the source documents: 
a. Patient Death 
b. Adverse Event:  One or more clinical or laboratory events which, in the medical 
judgment of the Investigator, are grounds for discontinuation even if the event does 
not appear to be related to study medication. The patient may withdraw because of an 
AE even if the Investigator does not feel that the event is grounds for discontinuation. 


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c. Protocol Violation:  The patient’s findings or conduct failed to meet the protocol 
entry criteria or failed to adhere to the protocol requirements 
d. Patient Withdrawal of Consent:  Patient desires to withdraw from further participation 
in the study. 
e. Administrative/Other:  Any cause of premature termination from the study other than 
the above, such as illness of investigator, loss of study drug, or termination of study 
by Cytokinetics. 
5.15. 
Assessment of Safety 
An independent Data Monitoring Committee (DMC) will periodically assess patient safety in an 
unblinded manner during the course of the study.  No unblinded data will be accessible to site 
staff, the Sponsor, study monitors, and personnel of the electronic data capture (EDC) vendors 
before the database is locked.  The specific activities and responsibilities of the DMC are defined 
in the DMC Charter for CY 5021. 
Dosing of an individual will be stopped and not resumed if treatment-related AEs, changes in 
vital signs, ECGs, or clinical laboratory results are observed and these changes pose a significant 
health risk, in the opinion of either the Investigator or the Sponsor Medical Monitor.  A blood 
sample for PK analysis should be collected at the time of the event or as close as possible to the 
time of the event. 
In the event of a confirmed, marked hepatic abnormality as defined in Appendix C  (Liver Safety 
Monitoring and Assessment), it is the Investigator’s responsibility to ensure contact with the 
Sponsor immediately (i.e., within 24 hours of awareness or at the earliest possible time point).  
Patients with AEs of hepatic origin accompanied by Liver Function Test (LFT) abnormalities 
should be carefully monitored. 
5.16. 
Replacement of Patients 
For patients who are discontinued by the Investigator or who voluntarily withdraw prematurely 
from the study, replacement patients may be enrolled as necessary to ensure that at least 
36 patients in each Cohort are evaluable for PK and safety.  
5.17. 
Study Discontinuation 
The study may be discontinued by the Sponsor for the following reasons: 
• Excessive rates of AEs  
• Medical or ethical reasons affecting the continued performance of the study 
• Difficulties in the recruitment of patients 
• A decision to cease or delay further development of the drug 
 


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6. 
INVESTIGATIONAL PRODUCT 
6.1. 
Description of Investigational Product 
This is a double-blind, placebo-controlled study.  As such, the site pharmacy staff, the 
Investigator, the patient, and remaining study site clinical staff will be blinded to treatment 
assignment. 
Study drug will be supplied to the sites as CK-2127107 Granules for Oral Suspension and 
Placebo for CK-2127107 Granules for Oral Suspension. Study drug will be constituted by the 
site pharmacy for patient use. 
The Sponsor, or designee, will provide the pharmacist with adequate quantities of CK-2127107 
and matching placebo bottles as follows:   
Table 7: 
Study Drug 
Study Drug 
CK-2127107 Granules for Oral Suspension 
Placebo for CK-2127107 Granules for 
Oral Suspension 
Form 
Granules for Oral Suspension 
Granules for Oral Suspension 
Manufacturer 
Patheon, Inc. 
Toronto Regional Operations (TRO) 
2100 Syntex Court 
Mississauga, Ontario L5N 7K9 
Canada 
Patheon, Inc. 
Toronto Regional Operations (TRO) 
2100 Syntex Court 
Mississauga, Ontario L5N 7K9 
Canada 
CK-2127107 Granules for Oral Suspension and Placebo for CK-2127107 Granules for Oral 
Suspension will be supplied to the clinical site in 240 mL polyethylene terephthalate (PET) 
amber bottles containing 12 g of granules per bottle with an induction sealed aluminum foil and 
child resistant cap.  Each bottle contains sufficient drug for 1 week of dosing plus overage.  
Bottles of CK-2127107 Granules for Oral Suspension and Placebo for CK-2127107 Granules for 
Oral Suspension are to be stored at controlled room temperature (20-25°C; 68-77°F) with 
temporary excursions allowed between 15-30°C; 59-86°F. 
The Sponsor, or designee, will also provide clear 10 mL oral syringes and press-in-bottle 
adapters (PIBA).  The pharmacy will provide USP Purified Water for constitution. 
6.2. 
Dose Preparation and Administration  
The dry granules are constituted in the bottle by the pharmacy staff by adding 126 mL of 
USP purified water, followed by 2 minutes vigorous shaking, holding the suspension at 
ambient temperature for 60 minutes and then inverting the bottle 20 times.   The bottle is held 
at ambient temperature for another 60 minutes and then inverted another 20 times.  The final 
volume of the prepared suspension is 135 mL.  Each bottle contains 15 doses of 9 mL/dose of 
the oral suspension for weekly BID dosing. After constitution, the PIBA is inserted into the 
bottle opening and recapped. The constituted suspension is stored refrigerated 2-8°C; 36-
46°F.   
Patients will take home the bottles of prepared oral suspension and clear 10 mL oral syringes.  
The constituted suspension is stored refrigerated.  Prior to administration, the bottle is inverted 


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five times to assure the homogeneity of the suspension.  A clear 10 mL oral syringe is inserted 
into the PIBA and used to withdraw a 9 mL dose to be administered orally.  
Study drug (CK-2127107 or placebo) should be taken in the morning (on study visit days it will 
be taken in the clinic) and in the evening, approximately 12 hours apart.  All doses of study drug 
should be taken after fasting from food at least 3 hours and following the dose, patients should 
also fast from food (not including water) for at least 1 hour.  Unused study drug should be 
returned to the clinic at each study visit. 
If the dose is decreased in Cohort 2 (see Section 8.8 for discussion), the volume of administration 
may be decreased as a means to adjust dose.  The pharmacy manual will be updated to reflect 
any changes and provided to sites with appropriate training prior to the start of Cohort 2. 
6.3. 
Dosing Diary  
A dosing diary will be maintained by the patient to record date and time of twice daily study 
drug administration.  The dosing diary should be returned at each clinic visit. 
6.4. 
Randomization  
A randomization schedule will be centrally generated for each cohort.  The randomization 
schedule will be available for the pharmacy staff to prepare the study drug accordingly.  Patients 
will be randomized 2:1 to CK-2127107 or placebo and they will also be stratified by ambulatory 
versus non-ambulatory status. 
6.5. 
Study Drug Accountability and Disposal   
The site pharmacist or other qualified person responsible for managing study drug supplies will 
maintain an accurate record of the receipt of the investigational study drug as shipped by the 
Sponsor (or designee), including the kit number and date received.  One copy of this receipt will 
be returned to the Sponsor when the contents of the investigational study drug shipment have 
been verified.  An accurate drug disposition record will be kept, specifying the study drug 
provided to each patient and the dates of dose administration.  This drug accountability record 
will be available for inspection at any time.  At the completion of the study, the original drug 
accountability record will be available for review by the Sponsor upon request.   
All used and unused drug supplies will be returned to the Sponsor (or designee) or disposed of 
by the clinical research unit, per the Sponsor’s (or designee’s) instructions. 


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7. 
ADVERSE EVENTS 
7.1. 
Definitions  
7.1.1. 
Adverse Event 
As defined by the International Conference on Harmonisation (ICH), an adverse event (AE) is 
any untoward medical occurrence in a patient or clinical investigation subject administered an 
investigational product, whether or not the event is considered related to the investigational 
product.  An AE is therefore any unfavorable and unintended sign (including an abnormal 
laboratory finding), symptom, or disease (new or exacerbated) temporally associated with the use 
of the investigational product. 
Examples of an AE: 
• Conditions newly detected or diagnosed after administration of study drug, including 
conditions that may have been present but undetected prior to the start of the study 
• Conditions known to have been present prior to the start of the study that increase in 
severity or frequency after administration of study drug 
• Signs, symptoms, or the clinical sequelae of a suspected drug interaction 
• Signs, symptoms, or the clinical sequelae of a suspected overdose (overdose per se 
should not be reported as an AE term) 
• Abnormal laboratory findings (e.g., clinical chemistry, hematology) or other 
abnormal assessments (e.g., ECGs, vital signs, etc.) that are considered by the 
Investigator as a clinically significant change after the first dose of study drug.  The 
Investigator will exercise his/her medical and scientific judgment in deciding whether 
an abnormal laboratory finding or other abnormal assessment is a clinically 
significant change after the first dose of study drug. 
Issues Not Considered AEs: 
• Medical or surgical procedures (e.g., appendectomy); the condition that leads to the 
procedure (e.g., appendicitis) is the AE if it qualifies according to the definition above 
• Hospitalizations where an untoward medical occurrence did not occur (e.g., 
convenience admissions to a hospital) 
• Fluctuations of pre-existing disease(s) or condition(s) present or detected at the start 
of the study that do not represent a clinically significant change after the first dose of 
study drug 
• Abnormal laboratory or test findings that are not assessed by the Investigator as a 
clinically significant change after the first dose of study drug. 
 
 


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7.1.2. 
Serious Adverse Event 
A serious adverse event (SAE) is any AE that: 
a. Results in death 
NOTE: Death is selected as a serious criterion ONLY when the event is the cause of 
death.  Death is an outcome and the event which led to death should be the reported 
event term. 
b. Is life-threatening 
NOTE: The term 'life-threatening' in the definition of 'serious' refers to an event in 
which the patient was at risk of death at the time of the event.  It does not refer to an 
event that hypothetically might have caused death if it were more severe, prolonged, 
or untreated. 
c. Requires hospitalization or prolongation of existing hospitalization  
NOTE: Hospitalization signifies that the subject has been admitted to the hospital as 
an in-patient for any length of time.  Emergency room treatment does not qualify for 
this category, but may be appropriately included in category f (see below).  
Complications that occur during hospitalization are usually AEs.  If a complication 
prolongs hospitalization or fulfills any other serious criteria, the event will be 
considered as serious.  When in doubt as to whether ‘hospitalization’ occurred, 
consult the Medical Monitor. 
Hospitalization will not be considered an AE in itself.  It will be considered an 
outcome of an AE.  Therefore, if there is no associated AE, there is no SAE.  For 
example, hospitalization for elective treatment of a pre-existing condition that did not 
worsen after the first dose of study drug will not be considered an AE. 
d. Results in disability/incapacity 
NOTE: The term disability means a substantial disruption of a person’s ability to 
conduct normal life functions.  This definition is not intended to include experiences 
of relatively minor medical significance such as uncomplicated headache, nausea, 
vomiting, diarrhea, influenza, and accidental trauma (e.g. sprained ankle) that may 
temporarily interfere with or prevent everyday life functions but do not constitute a 
substantial disruption. 
e. Is a congenital anomaly/birth defect 
f. Is an important medical event 
NOTE: Medical and scientific judgment should be exercised in deciding if an event 
should be reported as serious. Important medical events that may not be immediately 
life-threatening or result in death or hospitalization but may jeopardize the patient or 
may require medical or surgical intervention to prevent one of the other outcomes 
listed in the above definition may be considered serious.  Examples of such events are 
intensive treatment in an emergency room or at home for allergic bronchospasm, 
blood dyscrasias or convulsions that do not result in hospitalization, or development 
of drug dependency or drug abuse.  If in doubt as to whether or not an event qualifies 
as an “important medical event”, consult the Sponsor’s Medical Monitor. 


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7.2. 
Collection of AEs/SAEs 
During each scheduled visit, ask about potential AEs or SAEs using the following standard 
questions: 
1. Have you had any medical problems since your last visit? 
2. Have you taken any new medications since your last visit? 
7.3. 
Recording and Reporting of AEs/SAEs 
7.3.1. 
Recording and Reporting of AEs 
Events occurring between the Screening Visit and just prior to the first dose of study drug on 
Day 1 should not be recorded in the AE eCRF.  They should be recorded in the Medical History 
eCRF. 
AEs will be documented from the first administration of study drug through the Follow-Up Visit.  
The Investigator will review all documentation (e.g., hospital progress notes, laboratory and 
diagnostic reports) relevant to the event.  A diagnosis will then be determined based on signs, 
symptoms, and/or other clinical information.  The diagnosis and not the individual 
signs/symptoms should be reported as the AE term. 
7.3.2. 
Recording and Reporting of SAEs 
If an AE meets any of the seriousness criteria (see Section 7.1.2 ), it must be reported using the 
SAE report form within 24 hours of the site’s knowledge.  At a minimum, the following 
information should be included: 
• Patient number 
• Event term, including an onset date and stop date, if applicable, and a brief 
description 
• Seriousness criterion/criteria 
• Causality assessment in relation to the investigational product 
If all information regarding the SAE is not initially available, the site should still report the SAE 
within 24 hours of awareness/discovery.  Additional information should be reported when it 
becomes available and no later than 24 hours after receipt of such information.  
7.4. 
Evaluating AEs and SAEs 
7.4.1. 
Assessment of Severity 
The Investigator should assess the severity of each AE/SAE.  The severity of AEs/SAEs will be 
assessed by assigning a Grade of 1, 2, 3, 4 or 5 according to the National Cancer Institute (NCI) 
Common Terminology Criteria for Adverse Events (CTCAE), version 4.0.   The CTCAE is 
available at the following link: 
http://ctep.cancer.gov/protocolDevelopment/electronic_applications/ctc.htm. 


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When an AE/SAE cannot be graded by CTCAE, the following severity grade may be used: 
• Grade 1 (Mild): Aware of sign or symptom, but easily tolerated and intervention is 
not indicated 
• Grade 2 (Moderate): Discomfort enough to cause interference with usual activity, 
local or non-invasive intervention is indicated 
• Grade 3 (Severe): Incapacitating with inability to work or do usual activity, not 
immediately life-threatening; hospitalization or prolongation of hospitalization may 
be indicated 
• Grade 4 (Life-Threatening): Refers to an event in which the patient was, in the view 
of the Investigator, at risk of death at the time of the event.  (This category is not to be 
used for an event that hypothetically might have caused death if it were more 
severe.); urgent intervention is indicated 
• Grade 5 (Fatal): Death related to AE 
Severity should not be confused with seriousness.  Severity is a category for rating the intensity 
of an event, and an event becomes serious when it meets one of the outcomes described in 
Section 7.1.2 . “Serious Adverse Event” 
7.4.2. 
Assessment of Causality 
The Investigator will assign causality to each SAE (related or unrelated).  When assessing 
relationship to study drug, the Investigator will consider the following factors: 
• Temporal association between administration of the study drug and the event 
• Cessation of the AE following discontinuation of dosing 
• Recurrence of the AE with reintroduction of study drug, if performed 
• Similarity to known class effects 
• Alternative causes, such as:  
− Known effects of concomitant medications 
− Pre-existing risk factors 
− Concurrent illnesses 
The assessment of causality will be based on the information available, and may be changed 
upon receipt of additional information. 
7.5. 
Follow-Up of AEs and SAEs 
After the initial recording of an AE/SAE, the Investigator should proactively follow the patient.  
Non-serious AEs that are still ongoing at the end of the study should be reviewed to determine if 
further follow up is required.  The Investigator will document on the AE eCRF any/all ongoing 
non-serious AEs that will not be followed up further after the patient exits the study.  If in doubt, 
the Investigator should consult the Sponsor’s Medical Monitor.   


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All SAEs should be followed until resolution, until the condition stabilizes, or until the patient is 
lost to follow-up.  Once the seriousness criterion no longer applies to the SAE (e.g., patient was 
discharged), the corresponding AE eCRF page should be updated.  All relevant additional 
information collected regarding an SAE, including laboratory test reports, consultation reports 
from other health care professionals, discharge summaries, or other information should be 
transmitted to Cytokinetics with the follow-up SAE report form within 24 hours of receipt or 
awareness. 
The Sponsor may request that the Investigator perform or arrange for the conduct of 
supplemental measurements and/or evaluations to elucidate as fully as possible the nature and/or 
causality of any AE/SAE.   
If a patient dies during participation in the study or during the follow-up period, the Investigator 
will provide Cytokinetics with a copy of any post-mortem findings, including an autopsy report 
if obtainable. 
7.6. 
Post-Study AEs/SAEs 
A post-study AE/SAE is defined as any event that occurs outside of the AE detection period 
defined in Section 7.3.1. 
Investigators are not obligated to actively solicit AEs from former study participants.  However, 
if the Investigator learns of an SAE at any time after a patient has been discharged from the study 
that he/she considers reasonably related to the investigational product, the Investigator will 
promptly notify Cytokinetics. 
7.7. 
Pregnancy 
Pregnancy is not an AE; however, information on pregnant female study participants and female 
partners of male study participants will be collected if the pregnancy occurs from the first dose of 
the investigational product until 10 weeks after the last dose.  The pregnancy information and its 
outcome will be collected using the Pregnancy Report Form. If the pregnancy occurs in a partner 
of a male study participant, the partner’s consent will be obtained before collecting information 
regarding the pregnancy and its outcome.     
If the pregnancy test (urine or serum) is positive, the pregnancy should be immediately reported 
to the Investigator and Cytokinetics.  Any patient who becomes pregnant during the study is not 
eligible to continue the study and should complete the study procedures as soon as possible.  The 
male participant, who have not had a vasectomy with a confirmed zero sperm count, will be 
advised to use barrier method (condom) during the study and up to 10 weeks after the last dose 
of the investigational product to prevent pregnancy of female partners of child bearing potential 
and/or fetal exposure if the partner is pregnant.   
Accidental, therapeutic, or spontaneous abortions and congenital anomalies or birth defects will 
be reported as SAEs. 


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8. 
STATISTICAL METHODS 
8.1. 
General Considerations 
8.1.1. 
General Approach 
The primary objective of this study is to determine the potential PD effects of CK-2127107 
suspension after multiple oral doses in patients with SMA.   
The secondary objectives of this study are:   
• To evaluate the safety and tolerability of multiple doses of CK-2127107 administered 
orally to SMA patients 
• To evaluate the PK of CK-2127107 administered orally to SMA patients 
All statistical tests will be two-sided hypothesis tests performed at the 5% level of significance 
for main effects.  All confidence intervals will be two-sided 95% confidence intervals, unless 
stated otherwise.  No adjustments for multiple comparisons will be made.  
Summary statistics for continuous variables will include numbers of patients, means, medians, 
standard deviations, minima, and maxima, overall and by treatment, cohort, and ambulatory and 
non-ambulatory patients.  For categorical variables, frequencies and percentages will be given 
overall and by treatment, dose, and ambulatory and non-ambulatory patients. Assumptions for 
statistical models will be evaluated.  If assumptions are substantially violated, alternative 
analysis methods will be considered. Missing data will not be imputed unless specified.  Baseline 
is defined as the last available measurement taken before the first dose unless otherwise 
specified. 
8.1.2. 
Sample Size and Randomization 
With a two-tailed alpha error of 0.05, at least 72 patients (24 on placebo and 48 on CK-2127107) 
are expected to complete the 8 weeks of double-blind treatment, which is estimated to provide 
84% power to detect a treatment difference of three points in HFMS-E score change from 
baseline to the end of the 8-week double-blind treatment between placebo and all CK-2127107 
dose groups pooled with a common standard deviation of four points (Swoboda, Scott et al. 
2010).  Stratified by ambulatory and non-ambulatory condition, at least 36 patients 
(approximately 18 ambulatory and 18 non-ambulatory patients) for each of the two cohorts will 
be randomized to receive CK-2127107 and placebo in a treatment allocation ratio of 2:1.  
Replacement patients will be enrolled as necessary to ensure that at least 36 patients complete 
each Cohort (approximately 18 patients in each of the ambulatory group or the non-ambulatory 
group) and are evaluable for PD effect of CK-2127107. In order to ensure this, replacement 
patients may be recruited after one dropout has occurred.  Each replacement patient will be 
assigned to the same treatment for the same ambulatory or non-ambulatory condition as the 
patient being replaced.  


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8.2. 
Analysis Populations 
8.2.1. 
Safety Analysis Set (SAS) 
The safety population will consist of all patients who receive at least one dose of study 
medication. 
8.2.2. 
Pharmacokinetics Analysis Set (PKS) 
The PKS will consist of all patients who have at least one evaluable PK plasma profile, provided 
they have no major protocol violations that could affect the PK of CK-2127107. 
8.2.3. 
Pharmacodynamic Analysis Set (PDS) 
The PDS consists of all patients in the SAS who have at least one non-missing post-baseline 
assessment of the PD endpoints, provided they have no major protocol violations that could 
affect the PD effect of CK-2127107. 
8.3. 
Statistical Analysis 
8.3.1. 
Patient Disposition 
The number of patients who are randomized, who complete the planned treatment, and who 
prematurely discontinue from the study, including replacement patients if any, will be presented. 
Reasons for premature discontinuation as recorded on the termination page of the eCRF will be 
summarized. 
8.3.2. 
Demographics and Other Baseline Characteristics 
Patient demographics and other baseline characteristics will be summarized descriptively. 
8.4. 
Safety Analysis 
Safety data will be summarized overall and by treatment dose as well as by ambulatory or non-
ambulatory condition. 
8.4.1. 
Study Drug Exposure 
Study drug exposure will be summarized. The amount of study drug expected to have been 
administered, and the amount of each dose of study drug actually received will be presented. 
8.4.2. 
Adverse Events 
A TEAE is an AE with an onset after initiation of study drug dosing during the randomized 
treatment period, or an AE present at initiation of study drug dosing that worsens in severity 
during the randomized treatment period. AEs will be coded using MedDRA Preferred Terms and 
grouped by System Organ Class. The version of the MedDRA dictionary will be noted in the 
report.  
AEs will be classified according to severity and relationship to study medication. The number 
and percentage of patients reporting AEs will be tabulated. The number and percentage of 
patients reporting AEs will also be tabulated by severity or relationship to study medication. 


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Only TEAEs with an onset from the first dose until the follow up visit will be summarized. All 
AEs will be included in patient listings. 
8.4.3. 
Serious Adverse Events 
Summaries of SAEs and SAEs by severity grade determined by the NCI-CTCAE version 4 as 
well as by relationship to study medication will be presented. 
8.4.4. 
Concomitant Medications 
Concomitant medications will be summarized and classified by drug class and preferred term 
using the WHO (World Health Organization) Drug dictionary. The version of the WHO Drug 
dictionary will be noted in the report. 
8.4.5. 
Clinical Laboratory Parameters 
Descriptive statistics for clinical laboratory values and changes from baseline at each protocol 
specified assessment time point will be presented. 
8.4.6. 
Vital Signs 
Descriptive statistics for vital signs and changes from baseline at each protocol specified 
assessment time point will be presented. 
8.4.7. 
Electrocardiogram (ECG) 
Descriptive statistics for ECG parameters (e.g., heart rate, PR interval, QRS interval, QT 
interval, and QTc interval [both Bazett’s and Fridericia’s corrections) and changes from baseline 
at each protocol specified assessment time point will be presented. 
8.5. 
Pharmacodynamic Analysis 
PD analyses will be based on the PDS.  The following pharmacodynamic endpoints are 
categorized by the pharmacodynamic assessments below: 
8.5.1. 
Forced Vital Capacity (FVC) 
• Change from baseline in FVC at the end of Week 8 treatment 
• Slope of FVC change from baseline to the end of Week 8 treatment 
8.5.2. 
Maximum Inspiratory Pressure (MIP) / Maximum Expiratory Pressure (MEP) 
• Change from baseline in MIP/MEP at the end of Week 8 treatment 
• Slope of MIP/MEP change from baseline to the end of Week 8 treatment 
8.5.3. 
Hand-Held Dynamometry 
• Change from baseline in muscle megascore at the end of Week 8 treatment 
• Slope of muscle megascore change from baseline to the end of Week 8 treatment 


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8.5.4. 
Hammersmith Functional Motor Scale-Expanded (HFMS-E) 
• Change from baseline in HFMS-E score at the end of Week 8 treatment 
• Slope of HFMS-E score change from baseline to the end of Week 8 treatment  
8.5.5. 
Revised Upper Limb Module (RULM) 
• Change from baseline in upper limb module-revised score at the end of Week 8 
treatment 
• Slope of upper limb module-revised score change from baseline to the end of Week 8 
treatment 
8.5.6. 
Timed Up and Go (TUG) Test 
• Change from baseline in time up and go at the end of Week 8 treatment 
• Slope of time up and go change from baseline to the end of Week 8 treatment 
8.5.7. 
6-Minute Walk Test (6MWT) 
• Change from baseline in 6-Minute Walk distance at the end of Week 8 treatment 
• Slope of 6-Minite Walk distance change from baseline to the end of Week 8 treatment 
8.5.8. 
Global Assessments 
• Responder is defined as an improvement response at the end of Week 8 treatment 
8.5.9. 
SMA-HI 
• Change from baseline to end of Week 8 
Pharmacological effects by dose and by plasma concentrations of CK-2127107 will be 
investigated.  Test-retest data between screening and Day 1 will be investigated for data 
reliability and consistency. 
Statistical analysis will be performed on change from baseline PD assessments for all patients on 
CK-2127107 compared to placebo.  For continuous endpoints, with assessments at the end of 
Week 2, 4, and/or 8, analysis of PD assessments will be performed using an analysis of co-
variance (ANCOVA) model with treatment and time as fixed effects, their interaction, the 
baseline value of the variable being analyzed as a covariate, accounting for repeated measures 
within patients.  The primary comparison will be between all patients on CK-2127107 vs. 
placebo, at the end of Week 8, regardless of each patient’s dosage level.  For categorical 
endpoints, analysis of PD assessments will be performed using the appropriate chi-square test.  A 
logistic regression will be used to model responder variables, providing odds ratio and 95% CI 
for odds ratio for treatment differences between active dose levels and placebo. The odds ratio 
estimated from GEE models will also be provided for responder variables with repeated 
measures.  Additional analyses based on dose and plasma concentration relationships will be 
performed with similar models, with treatment replaced by dose, plasma concentration, and/or 
concentration bins.  All p-values provided will be considered nominal and are for descriptive 
purposes only. 


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A detailed description of the analyses will be presented in the Statistical Analysis Plan. 
8.6. 
Pharmacokinetic Analysis 
PK analysis will be based on the PKS. For each patient, the following PK parameters and time to 
reach steady-state will be calculated, whenever possible, based on the plasma concentrations of 
CK-2127107 and its metabolites (if applicable) using non-compartmental PK methods: 
Cmax 
 
 
Maximum observed plasma concentration 
Ctrough  
 
Pre-dose plasma concentration 
AUC0-t 
Area under the plasma concentration-time curve from pre-dose to the last 
measurable plasma concentration 
AUCavg 
Area under the plasma concentration-time curve at steady-state will be the 
average AUC0-24 at the end of Week 2 and 8 
8.7. 
Statistical Analysis of Pharmacokinetic Data 
Descriptive statistics in terms of mean, standard deviation (SD), geometric mean, coefficient of 
variation (CV), median, and range will be provided for concentrations at all planned sampling 
time points and all PK parameters listed above by dose, cohort, ambulatory and non-ambulatory 
condition, and adolescence (12 to < 18 years old) and adult (≥ 18 years old) patients.  Individual 
or mean concentrations over time will be graphically displayed.   The least square difference of 
natural log-transformed Cmax and AUCavg at the end of Week 2 and 8 between adolescence (12 to 
< 18 years old) and adult (≥ 18 years old) patients and the associated 90% confidence interval 
(CI) will be examined using analysis of variance (ANOVA) model including terms of dose, 
gender, and ambulatory and non-ambulatory condition, using adult patients as the reference, 
respectively.  Back-transformation will provide point estimates and conventional 90% CIs for the 
geometric mean ratio of Cmax and AUCavg between adolescence and adult patients. Similar 
method will be used to examine the differences in Cmax between ambulatory and non-ambulatory 
condition, controlling for dose, age, and gender as using ambulatory condition as the reference.  
Graphs with PK parameters by dose and adolescence and adult patients will be provided. 
8.8. 
Interim Analysis and Dose Level Review 
After 30 patients in Cohort 1 have received at least one dose of study drug and have either 
completed the End of Week 8 visit or have permanently discontinued study drug, representatives 
of the Sponsor, the Sponsor’s collaborator (Astellas), and one of the Study Investigators will 
review the safety and PK data available at that time from Cohort 1, including blinded 
pharmacokinetic data, to confirm the dose level or reduce the dose level of CK-2127107 to be 
administered in Cohort 2.  After the last patient in Cohort 1 completes 2 weeks of dosing, the 
recommendation along with the safety data from the last 6 patients will be forwarded to the 
DMC for their endorsement of the dose selected and the decision to proceed to Cohort 2.  The 
DMC may also indicate the need to alter study conduct.  If the aggregate blinded data do not 
allow a decision to proceed to Cohort 2 to be made, the database for Cohort 1 will be locked.  An 
unblinded interim analysis will be conducted and the recommendation on how to proceed 
forwarded to the DMC before Cohort 2 is commenced.  In addition, upon completion of dosing 


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in Cohort 1 or Cohort 2, the database may be locked or frozen and an interim analysis of the data 
may be conducted for planning future development. 
8.9. 
Statistical Software 
Statistical analyses will be performed using SAS® version 9.3 or greater. 
8.10. 
Changes in Statistical Methods 
All changes in statistical methods that are described in the statistical analysis plan will be 
documented in the clinical study report. 


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9. 
ADMINISTRATIVE ASPECTS 
9.1. 
Change in Protocol 
There will be no alterations in the protocol without agreement between the Sponsor and the 
Investigator.  There will be no alterations in the protocol without the express written approval of 
the Sponsor, Investigator, and the Institutional Review Board (IRB). 
9.2. 
Initiation Visit 
Prior to the start of the clinical study at each site, the representative(s) of the Sponsor will meet 
with the Investigator(s) and appropriate clinical staff to familiarize the Investigator and clinical 
staff with the materials necessary for conducting the clinical study. 
9.3. 
Disclosure 
All information provided regarding the study, as well as all information collected/documented 
during the course of the study, will be regarded as confidential. The Investigator agrees not to 
disclose such information in any way without prior written permission from the Sponsor. 
Any publication of the results, either in part or in total (e.g., articles in journals or newspapers, 
oral presentations, abstracts, etc.) by the Investigator(s) or their representative(s), shall require 
prior notification and review, within a reasonable time frame, by the Sponsor, and cannot be 
made in violation of the Sponsor’s confidentiality restrictions or to the detriment of the 
Sponsor’s intellectual property rights. 
9.4. 
Monitoring 
The Sponsor will designate site monitors who will be responsible for monitoring this clinical 
trial. The site monitor will monitor the study conduct, proper eCRF and source documentation 
completion and retention, and accurate study drug accountability.  To this end, the monitor will 
visit the study site at suitable intervals and be in frequent contact through verbal and written 
communication.  It is essential that the site monitor have access to all documents (related to the 
study and the individual participants) at any time these are requested. In turn, the site monitor 
will adhere to all requirements for patient confidentiality as outlined in the ICF. The Investigator 
and other study personnel will be expected to cooperate with the site monitor, to be available 
during a portion of the monitoring visit to answer questions, and to provide any missing 
information. 
9.5. 
Institutional Review Board  
In accordance with the US Code of Federal Regulations, 21 CFR 56, the protocol, subject 
recruitment advertisements (if applicable), and ICF will be submitted to the IRB for review and 
subsequent written approval by the IRB must be received before proceeding.  The Sponsor will 
supply relevant material for the Investigator to submit to the IRB for the protocol’s review and 
approval.  Verification of the IRB unconditional approval of the protocol and the written ICF 
statement will be transmitted to the Investigator. 
The IRB will be informed by the Investigator of subsequent protocol amendments and of serious 
and unexpected AEs.  Approval for protocol amendments will be transmitted in writing to the 


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Investigator.  If requested, the Investigator will permit audits by the IRB and regulatory 
inspections by providing direct access to source data/documents. 
The Investigator will provide the IRB with progress reports at appropriate intervals (not to 
exceed one year) and a Study Progress Report following the completion, termination, or 
discontinuation of the Investigator’s participation in the study. 
9.6. 
Informed Consent 
Before protocol-specific procedures are carried out, written informed consent for the study will 
be obtained from patients who are 18 years of age and older and for minors who are at least 
12 years of age, parental permission and child assent will be required.  The ICF and parental 
permission and assent generated by the Investigator (or designee) will be approved (along with 
the protocol) by the IRB and will be acceptable to the Sponsor. 
The Investigator (or designee) will explain the nature of the study and the action of the test 
product. The capable patients and parents/legal guardians of minors will be informed that 
participation is voluntary and that patients can withdraw from the study at any time. In 
accordance with 21 CFR 50, informed consent shall be documented by the use of a written ICF 
or parental permission and child assent approved by the IRB and will be signed by the patient 
and if the patient is a minor, the parental permission will be signed by the minor’s parents/legal 
guardians prior to protocol-specific procedures being performed.  A copy of the signed consent 
(or signed permission and assent), and the original will be maintained with the patient’s 
records.  A copy of the IRB approved ICF or parental permission and child assent must be sent to 
the Sponsor (or designee).  
9.7. 
Records 
The results from data collected during the study will be recorded in the patient’s eCRF.  To 
maintain confidentiality, the patient will be identified only by numbers. 
The completed eCRFs will be transferred to the Sponsor or designee. All source documents, 
records, and reports will be retained by the study site in accordance with 21 CFR 312.62(c).  All 
primary data, or copies thereof (e.g., laboratory records, source documents, correspondence, 
photographs, and computer records), which are a result of the original observations and activities 
of the study and are necessary for the reconstruction and evaluation of any study report, will be 
retained in the study site archives. 
9.8. 
Reference to Declaration of Helsinki/Basic Principles 
The study procedures outlined in this protocol will be conducted in accordance with the CFR 
governing Protection of Human Subjects (21 CFR 50), Financial Disclosure by Clinical 
Investigators (21 CFR 54), IRBs (21 CFR 56), Investigational New Drug Application (21 CFR 
312), and Applications for FDA Approval to Market a New Drug (21 CFR 314), as appropriate. 
As such, these sections of U.S. Title 21 CFR, along with the applicable ICH Guidelines, are 
commonly known as Good Clinical Practices (GCP), which are consistent with the Declaration 
of Helsinki, 1996. 


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CY 5021 Protocol Amendment 03: 16 Mar 2018 
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10. 
REFERENCES 
Baudry, S. and J. Duchateau (2004). "Postactivation potentiation in human muscle is not related 
to the type of maximal conditioning contraction." Muscle Nerve 30(3): 328-336. 
FDA (2009). Guidance for Industry, Drug-induced liver injury: Premarketing clinical evaluation. 
D. Safety. 
Hansen, R., K. G. Saikali, et al. (2014). "Tirasemtiv amplifies skeletal muscle response to nerve 
activation in humans." Muscle Nerve 50(6): 925-931. 
Hotz, K. J., A. G. Wilson, et al. (1997). "Mechanism of thiazopyr-induced effects on thyroid 
hormone homeostasis in male Sprague-Dawley rats." Toxicol Appl Pharmacol 142(1): 
133-142. 
Mela, P., P. H. Veltink, et al. (2001). "The influence of stimulation frequency and ankle joint 
angle on the moment exerted by human dorsiflexor muscles." J Electromyogr Kinesiol 
11(1): 53-63. 
Swoboda, K. J., C. B. Scott, et al. (2010). "SMA CARNI-VAL trial part I: double-blind, 
randomized, placebo-controlled trial of L-carnitine and valproic acid in spinal muscular 
atrophy." PLoS One 5(8): e12140. 
Temple, R. (2006). "Hy's law: predicting serious hepatotoxicity." Pharmacoepidemiol Drug Saf. 
15(4): 213-220. 
 
 
 
 


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APPENDIX A. SCHEDULE OF EVENTS 
 
Study Procedures 
Screening 
Day 1 
End of 
Week 1 
End of 
Week 2 
End of 
Week 4 
End of 
Week 8 
FU Visit 
Informed Consent 
X 
 
 
 
 
 
 
Incl/Excl Criteria 
X 
 
 
 
 
 
 
Demographics 
X 
 
 
 
 
 
 
Medical History 
X 
 
 
 
 
 
 
Concomitant Meds 
X 
X 
X 
X 
X 
X 
X 
Physical Exam a 
X 
 
 
 
 
 
X 
Neurological Exam 
X 
 
 
 
 
 
X 
Height, Ulna Length 
X 
 
 
 
 
 
 
Weight, BMI b 
X 
X 
X 
X 
X 
X 
X 
12-Lead ECG 
X 
X 
 
X 
 
X 
X 
Vital Signs c 
X 
X 
X 
X 
X 
X 
X 
Clinical Safety Labs 
X 
X 
 
X 
 
X 
X 
Pregnancy Test d 
X 
 
 
 
 
 
 
PK Sample e 
 
X 
X 
X 
X 
X 
 
Pulmonary Function 
Tests 
X 
X 
X 
X 
X 
X 
X 
Muscle Strength 
X 
X 
X 
X 
X 
X 
X 
HFMS-E 
X 
X 
X 
X 
X 
X 
X 
RULM 
X 
X 
X 
X 
X 
X 
X 
TUG Test f 
X 
X 
 
 
X 
X 
X 
6MWT f 
X 
X 
 
 
X 
X 
X 
Global Assessments 
 
 
 
X 
 
X 
X 
Study Drug Dosing 
 
X 
X 
X 
X 
X 
 
AE/SAE Evaluations 
 
X 
X 
X 
X 
X 
X 
BDI® FastScreen 
X 
X 
X 
X 
X 
X 
X 
SMA-HI 
 
X 
 
 
 
X 
 
a Complete physical examination at Screening Visit, abbreviated physical examination at FU visit 
b BMI only at Screening 
c Oral temperature only at Screening 
d Only for females of childbearing potential 
e PK sampling on Day 1 visit, End of Week 1 visit, End of Week 2 visit, End of Week 4 visit, and End of Week 8 
visit;  refer to Table 6 in protocol 
f For ambulatory patients only 
 
 


Protocol CY 5021                                                                                                 CONFIDENTIAL 
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51  
 
APPENDIX B. CYP3A4 INHIBITORS AND CYP3A4 INDUCERS 
 
CYP3A4 Inhibitors 
CYP3A4 Inducers 
Strong Inhibitors: 
carbamazepine 
indinavir 
efavirenz 
nelfinavir 
nevirapine 
ritonavir 
phenobarbital 
clarithromycin 
phenytoin 
itraconazole 
pioglitazone 
ketoconazole 
rifabutin 
nefazodone 
rifampin 
 
St. John's Wort 
Moderate Inhibitors:  
troglitazone 
erythromycin 
 
grapefruit juice 
 
verapamil 
 
suboxone 
 
diltiazem 
 
 
 
Weak Inhibitors: 
 
cimetidine 
 
 
 
 


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52  
 
APPENDIX C. LIVER SAFETY MONITORING AND ASSESSMENT 
Any patient enrolled in a clinical study with active drug therapy and reveals an increase of serum 
aminotransferases (AT) to > 3 × ULN, or bilirubin > 2 × ULN, should undergo detailed testing 
for liver enzymes (including at least ALT, AST, ALP, and TBL). Testing should be repeated 
within 24 hours of notification of the test results. For studies for which a central laboratory is 
used, alerts will be generated by the central lab regarding moderate and severe liver abnormality 
to inform the Investigator, study monitor and study team. Patients should be asked if they have 
any symptoms suggestive of hepatobiliary dysfunction. 
Definition of Liver Abnormalities 
Confirmed abnormalities will be characterized as moderate and severe where ULN: 
 
 ALT or AST 
 
Total Bilirubin 
Moderate 
 > 3× ULN  
or 
> 2× ULN 
Severe 
 > 3× ULN 
and > 2× ULN 
In addition, the patient should be considered to have severe hepatic abnormalities for any of the 
following: 
• ALT or AST > 8× ULN 
• ALT or AST > 5× ULN for more than 2 weeks   
• ALT or AST > 3× ULN and INR > 1.5 (If INR testing is applicable/evaluated). 
• ALT or AST > 3× ULN with the appearance of fatigue, nausea, vomiting, right upper 
quadrant pain or tenderness, fever, rash and/or eosinophilia (> 5%).  
The investigator may determine that abnormal LFTs, other than as described above, may qualify 
as moderate or severe abnormalities and require additional monitoring and follow-up. 
Follow-up Procedures 
Confirmed moderate and severe abnormalities in hepatic functions should be thoroughly 
characterized by obtaining appropriate expert consultations, detailed pertinent history, physical 
examination and laboratory tests. The site should complete the Liver Abnormality Case Report 
Form (LA-CRF) or an appropriate document. Patients with confirmed abnormal LFTs should be 
followed as described below. 
Confirmed moderately abnormal LFTs should be repeated 2-3 times weekly then weekly or less 
if abnormalities stabilize or the study drug has been discontinued and the patient is 
asymptomatic.   
Severe hepatic liver function abnormalities as defined above, in the absence of another etiology, 
may be considered an important medical event and may be reported as a SAE.  The Sponsor 
should be contacted and informed of all patients for whom severe hepatic liver function 
abnormalities possibly attributable to study drug are observed. 
To further assess abnormal hepatic laboratory findings, the investigator is expected to: 


Protocol CY 5021                                                                                                 CONFIDENTIAL 
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53  
 
• Obtain a more detailed history of symptoms and prior or concurrent diseases.  
Symptoms and new onset-diseases should be recorded as ‘adverse events’ on the AE 
page of the eCRF. Illnesses and conditions such as hypotensive events, and 
decompensated cardiac disease that may lead to secondary liver abnormalities should 
be noted. Non-alcoholic steatohepatitis (NASH) is seen in obese 
hyperlipoproteinemic, and/or diabetic patients and may be associated with fluctuating 
aminotransferase levels.  The investigator should ensure that the medical history form 
captures any illness that pre-dates study enrollment that may be relevant in assessing 
hepatic function.  
• Obtain a history of concomitant drug use (including non-prescription medication, 
complementary and alternative medications), alcohol use, recreational drug use, and 
special diets.  Medications, including dose, should be entered on the concomitant 
medication page of the eCRF.  Information on alcohol, other substance use, and diet 
should be entered on the LA-CRF or an appropriate document. 
• Obtain a history of exposure to environmental chemical agents. 
• Based on the patient’s history, other testing may be appropriate including:  
− acute viral hepatitis (A, B, C, D, E or other infectious agents)  
− ultrasound or other imaging to assess biliary tract disease 
− other laboratory tests including INR, direct bilirubin 
• Consider gastroenterology or hepatology consultations. 
• Submit results for any additional testing and possible etiology on the LA-CRF or an 
appropriate document. 
Study Discontinuation 
In the absence of an explanation for increased LFTs, such as viral hepatitis, pre-existing or acute 
liver disease or exposure to other agents associated with liver injury, the patient may be 
discontinued from the study. The investigator may determine that it is not in the patient’s best 
interest to continue study enrollment. Discontinuation of treatment should be considered if: 
• ALT or AST > 3 × ULN or, 
• ALT or AST > 2 × ULN and ALT or AST > 5 × baseline value or, 
• TBL > 2 × ULN  
In addition, if close monitoring for a patient with moderate or severe hepatic laboratory tests is 
not possible, drug should be discontinued. 
Hy’s Law Definition - Drug-induced jaundice caused by hepatocellular injury, without a 
significant obstructive component, has a high rate of bad outcomes, from 10–50% mortality (or 
transplant) (Temple 2006; FDA 2009).  


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54  
 
The two “requirements” for Hy’s Law are:  
1. Evidence that a drug can cause hepatocellular-type injury, generally shown by an 
increase in transaminase elevations higher 3 x ULN (“2 x ULN elevations are too 
common in treated and untreated patients to be discriminating”).  
2. Cases of increased bilirubin (at least 2 x ULN) with concurrent transaminase elevations at 
least 3 x ULN and no evidence of intra- or extra-hepatic bilirubin obstruction (elevated 
alkaline phosphatase) or Gilbert’s syndrome.  

SAP_001.pdf: 
 
 
 
STATISTICAL ANALYSIS PLAN 
 
VERSION: 02 
DATE OF PLAN: 08 MAY 2018 
 
 
BASED ON: 
Protocol Amendment 03 dated March 16, 2018 
 
 
STUDY DRUG: CK-2127107 
 
PROTOCOL NUMBER: CY 5021 
 
 
STUDY TITLE: 
A PHASE 2, DOUBLE-BLIND, RANDOMIZED, PLACEBO-CONTROLLED, 
MULTIPLE DOSE STUDY OF CK-2127107 IN TWO ASCENDING DOSE COHORTS 
OF PATIENTS WITH SPINAL MUSCULAR ATROPHY (SMA)  
 
 
 
SPONSOR: 
Cytokinetics, Inc. 
280 East Grand Avenue, 
South San Francisco, CA 94080 
 
 
This study is being conducted in compliance with good clinical practice, including the archiving 
of essential documents. 
 
 
 
 
 
CONFIDENTIAL  


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021 
 
08 May 2018 
CONFIDENTIAL                                                                                                                   Page 2  
 
SIGNATURE PAGE 
 
This document has been prepared and approved* by: 
 
Dafeng Chen, Ph.D. 
_________________________________________________________  
Consultant, Biostatistics, Biometrics  
 
Jenny Wei, Ph.D. 
_________________________________________________________  
Associate Director, Biostatistics, Cytokinetics Inc. 
 
 
 
 
 
This document has been reviewed and approved* by: 
 
Lisa Meng, Ph.D. 
__________________________________________________________  
Senior Director, Biostatistics, Biometrics, Cytokinetics Inc. 
 
Stacy Rudnicki, M.D. 
__________________________________________________________  
Senior Medical Director, Clinical Research, Neurology, Cytokinetics Inc. 
 
 
Bettina Cockroft, M.D., M.B.A  
__________________________________________________________  
Vice President, Clinical Research, Neurology, Cytokinetics Inc. 
 
 
 
* See electronic signatures at the end of the document.


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 3 
TECHNICAL SUMMARY REPORT (TSR) 
Name of Sponsor/Company 
Cytokinetics Inc. 
Individual Study Table Referring 
to Part of the Dossier: 
Volume: 
(For National Authority Use 
Only): 
Name of Finished Product: 
No trade name 
Page: 
 
Name of Active Ingredient: 
CK-2127107 
 
 
Title of Study: 
A Phase 2 Double-Blind Randomized Placebo-Controlled Multiple Dose Study of CK-2127107 in Two 
Ascending Dose Cohorts of Patients with Spinal Muscular Atrophy (SMA) 
Studied period (years): 2016-2018 
Phase of development: Phase 2 
Objectives: 
Primary:  
To determine the potential PD effects of CK-2127107 suspension after multiple oral doses in patients with SMA. 
Secondary: 
To evaluate the safety and tolerability of multiple doses of CK-2127107 administered orally to SMA patients. 
To evaluate the PK of CK-2127107 administered orally to SMA patients. 
Methodology: 
This study is a double-blind, randomized, placebo-controlled, multiple dose study of CK-2127107 in two 
sequential ascending dose cohorts of patients with SMA. The first cohort will receive 150 mg twice daily and the 
second cohort will receive 450 mg twice daily. In each cohort, patients will be randomized 2:1 to CK-2127107 
versus placebo. Patients will be given single dose on Day 1 and then twice daily (BID) for remainder of 8 weeks.  
Number of Subjects: 
Approximately 72 patients (36 in each cohort) will be enrolled. Patients who discontinue the study drug 
prematurely will be replaced to ensure sufficient number of patients included in the analysis. 
Diagnosis and main criteria for inclusion: The target population is patients who are diagnosed of SMA type II, 
III or IV and at least 12 years old. 
Inclusion criteria: 
• 
Able to comprehend and willing to sign an Informed Consent Form (ICF) for patients 18 years of 
age and older. For patients less than 18 years of age, parent(s)/legal guardian(s) of patients must 
provide written informed consent prior to participation in the study and informed assent will be 
obtained from minors at least 12 years of age when required by regulation. 
• 
Males or females with genetically confirmed diagnosis of SMA who are Type II, III or IV and at 
least 12 years of age 
• 
Ambulatory patients, once having achieved a standing position independently, must be able to 
complete at least one lap in the 6-minute walk test (at least 50 meters) within 6 minutes without 
assistance 
• 
Non-ambulatory patients (defined as individuals who are effectively requiring a wheelchair for all 
mobility needs, they may be able to stand or walk short distances, but unable to walk 50 meters 
without assistance in 6 minutes). Non-ambulatory patients must be able to tolerate an upright sitting 
position, with support, continuously for 3 hours 
• 
Forced vital capacity (FVC) > 20% predicted at screening 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 4 
• 
Hammersmith Functional Motor Scale-Expanded (HFMS-E) score ≥ 10 and ≤ 54 at screening 
• 
Contracture of the elbow flexion and knee flexion ≤ 90 degrees 
• 
Pre-study clinical laboratory findings within the normal range or, if outside the normal range, 
deemed not clinically significant by the Investigator 
• 
Able to swallow an oral suspension and in the opinion of the Investigator, is expected to continue to 
be able to do so for the duration of the trial. Administration via a feeding tube is not allowed. 
• 
Male patients who have reached puberty must agree to do either of the following from Screening 
until 10 weeks after the last dose of the investigational product unless they have had a vasectomy 
and confirmed sperm count is zero: 
• 
Abstain from sexual intercourse, OR 
• 
If having heterosexual intercourse, must use a condom and their female partners who are of 
childbearing potential must use a highly effective contraception method* 
• 
Female patients who have had their first period will be considered of childbearing potential unless 
they are anatomically and physiologically incapable of becoming pregnant.   If of childbearing 
potential, the female patients must: 
• 
Have a negative urine/serum pregnancy test at Screening AND 
• 
Abstain from heterosexual intercourse from Screening until 10 weeks after the last dose of 
investigational product, OR 
− 
If having heterosexual intercourse, must use a highly effective contraception method* and 
require the male partners to use a condom from Screening until 10 weeks after the last dose 
of investigational product 
*Highly effective contraception methods include: 
• 
Established use of oral, injected or implanted hormonal methods of contraception 
• 
Placement of an intrauterine device (IUD) or intrauterine system (IUS) 
• 
Male patients must agree to refrain from sperm donation from Screening until 10 weeks after the 
final study drug administration 
Exclusion criteria: 
• 
History of significant hypersensitivity, intolerance, or allergy to any drug compound, food, or other 
substance, unless approved by the Investigator 
• 
Hospitalization within 2 months of Screening  
• 
History of stomach or intestinal surgery or resection that would potentially alter absorption and/or 
excretion of orally administered drugs (appendectomy, hernia repair, and/or cholecystectomy will 
be allowed) 
• 
A clinically significant illness, including but not limited to cardiac, pulmonary, GI, musculoskeletal, 
or psychiatric illness, that might interfere with the patient’s ability to comply with study procedures 
or that might confound the interpretation of clinical safety or efficacy data, within 4 weeks of 
Screening 
• 
History of alcoholism or drug addiction within 2 years prior to Screening 
• 
History of smoking more than 10 cigarettes (or equivalent amount of tobacco) per day within 3 
months prior to Screening 
• 
Patient has used a strong CYP3A4 inhibitor within 7 days prior to first dose of study drug or a 
strong CYP3A4 inducer within 14 days prior to first dose of study drug  


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• 
Any other medical condition that would interfere with performance of testing including (but not 
limited to) significant joint pain or arthritis limiting mobility, and chronic neuromuscular pain 
sufficient to require ongoing analgesic medication 
• 
Participation by two people at the same time that are living in the same household 
• 
Taking any other investigational study drug as a clinical trial participant, within 30 days or five half-
lives, whichever is greater, prior to Screening 
• 
An ALT or AST greater than 2-fold the upper limit of normal (ULN) or has total bilirubin greater 
than the ULN at screening.  These assessments may be repeated once at the investigator’s discretion 
(within the screening window). 
• 
Currently taking nusinersin, or has taken it in the past, or plans to take it during the course the study 
Test product, dose and mode of administration: 
The test product will be supplied as granules in bottles for oral suspension. The first cohort will receive 150 mg 
single dose on day 1 and BID thereafter, the second cohort will receive 450 mg single dose on day 1and BID 
thereafter. 
Duration of treatment: 
150 mg or 450 mg single dose on Day 1 and then twice daily (BID) for remainder of 8 weeks. 
Reference therapy, dose and mode of administration: 
 Placebo single dose on Day1 and then twice daily (BID) for remainder of 8 weeks. 
Criteria for evaluation: 
Efficacy: 
Change from baseline to the end of week 8 and slope of the change in forced vital capacity (FVC), maximum 
inspiratory pressure (MIP)/maximum expiratory pressure (MEP), muscle strength, Hammersmith functional 
motor scale –expanded (HFMS-E), revised upper limb module (RULM), timed up and go (TUG) test and 6-
minute walk test for ambulatory patients, global assessment, and SMA-HI. 
Safety: 
Clinical laboratory evaluations, 12-lead electrocardiograms, vital signs, physical exams, neurological exams, 
Beck Depression Inventory. 
Statistical methods: 
Besides descriptive statistics, the analysis will be performed based on a mixed effect model that accounts for 
within patient correlation. For change from baseline analysis, the covariates will include dose level, visit, 
interaction between dose level and visit, ambulatory status, and the baseline value of the variable being analyzed. 
The difference between patients on active dose (all dose levels combined) and placebo will be evaluated by 95% 
CIs and two-sided p-values.  
 
 
 


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TABLE OF CONTENTS 
SIGNATURE PAGE .......................................................................................................................2 
TECHNICAL SUMMARY REPORT (TSR) ..................................................................................3 
TABLE OF CONTENTS .................................................................................................................6 
LIST OF TABLES ...........................................................................................................................9 
1. ................ INTRODUCTION ......................................................................................................12 
2. ................ STUDY OBJECTIVES AND ENDPOINTS ..............................................................13 
2.1. ............. Study Objectives .........................................................................................................13 
2.1.1. .......... Primary Objective .......................................................................................................13 
2.1.2. .......... Secondary Objectives .................................................................................................13 
2.2. ............. Study Endpoints ..........................................................................................................13 
2.2.1. .......... PD Endpoints ..............................................................................................................13 
2.2.2. .......... Safety Endpoints .........................................................................................................13 
2.2.3. .......... PK Endpoints ..............................................................................................................13 
3. ................ STUDY DESIGN .......................................................................................................14 
3.1. ............. Summary of Study Design ..........................................................................................14 
3.2. ............. Definition of Study Drug ............................................................................................14 
3.3. ............. Sample Size Consideration .........................................................................................14 
3.3.1. .......... Sample Size Justification ............................................................................................14 
3.3.2. .......... Sample Size Re-estimation .........................................................................................15 
3.4. ............. Randomization ............................................................................................................15 
3.5. ............. Clinical Assessments ..................................................................................................15 
4. ................ PLANNED ANALYSES ............................................................................................16 
4.1. ............. Interim Analyses .........................................................................................................16 
4.1.1. .......... Dose Level Review .....................................................................................................16 
4.1.2. .......... DMC Meeting .............................................................................................................16 
4.1.3. .......... Possible Interim Analysis ...........................................................................................16 
4.2. ............. Final Analyses ............................................................................................................16 
5. ................ GENERAL CONSIDERATIONS FOR DATA ANALYSES AND 
HANDLING ...............................................................................................................17 
5.1. ............. General Summary Table and Individual Patient Data Listing Considerations ...........17 
5.2. ............. General Post Text Summary Table and Individual Patient Data Listing 
Format Considerations ................................................................................................17 


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5.3. ............. Data Management .......................................................................................................17 
5.4. ............. Data Presentation Conventions ...................................................................................17 
5.5. ............. Analysis Populations ..................................................................................................18 
5.5.1. .......... Safety Analysis Set .....................................................................................................18 
5.5.2. .......... Pharmacokinetics Analysis Set (PKS) ........................................................................18 
5.5.3. .......... Pharmacodynamic Analysis Set (PDS) ......................................................................18 
5.5.4. .......... Use of Analysis Sets in Different Analyses and Summary Level ..............................18 
5.6. ............. Baseline Definition .....................................................................................................19 
5.7. ............. Derived and Transformed Data ..................................................................................19 
5.7.1. .......... Baseline Age ...............................................................................................................19 
5.7.2. .......... Study Day ...................................................................................................................19 
5.7.3. .......... Change from Baseline .................................................................................................19 
5.7.4. .......... Visit Windows ............................................................................................................19 
5.7.5. .......... Multiple Assessments .................................................................................................19 
5.7.6. .......... Dose of Study Drug ....................................................................................................19 
5.7.7. .......... Percent Predicted Forced Vital Capacity (FVC) ........................................................20 
5.7.8. .......... Muscle Strength Mega Score ......................................................................................20 
5.7.9. .......... Hammersmith Functional Motor Scale-Expanded (HFMS-E) PNCR Total 
Score ...........................................................................................................................21 
5.8. ............. Handling of Missing Data ...........................................................................................21 
5.8.1. .......... Missing Efficacy Endpoints ........................................................................................21 
5.8.2. .......... Missing Start and Stop Dates for Prior and Concomitant Medication .......................21 
5.8.3. .......... Missing Onset and Stop Dates for Adverse Events ....................................................21 
6. ................ STUDY POPULATION .............................................................................................23 
6.1. ............. Patient Disposition ......................................................................................................23 
6.2. ............. Screen Failures ............................................................................................................23 
6.3. ............. Protocol Deviations ....................................................................................................23 
6.4. ............. Demographic and Baseline Characteristics ................................................................23 
6.5. ............. Listing of Patient Inclusion and Exclusion Criteria ....................................................24 
6.6. ............. Medical History and Medical Conditions Present at Entry ........................................24 
6.7. ............. Prior Medication History and Medications Present at Entry ......................................24 
6.8. ............. Baseline Physical Examination ...................................................................................24 
6.9. ............. Baseline Vital Signs ....................................................................................................24 


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6.10. ........... Baseline Laboratory Data ...........................................................................................24 
6.11. ........... Baseline Efficacy Evaluations ....................................................................................24 
7. ................ EFFICACY .................................................................................................................25 
7.1. ............. General Considerations ...............................................................................................25 
7.1.1. .......... Maximum Forced Vital Capacity (FVC) ....................................................................25 
7.1.2. .......... Maximum Inspiratory Pressure (MIP) / Maximum Expiratory Pressure 
(MEP) .........................................................................................................................25 
7.1.3. .......... Muscle Strength Measured by Hand-Held Dynamometry .........................................25 
7.1.4. .......... Hammersmith Functional Motor Scale-Expanded (HFMS-E) ...................................25 
7.1.5. .......... Revised Upper Limb Module (RULM) ......................................................................25 
7.1.6. .......... Timed Up and Go (TUG) Test for Ambulatory Patients ............................................25 
7.1.7. .......... 6-Minute Walk Test (6MWT) For Ambulatory Patients ............................................25 
7.1.8. .......... Global Assessments ....................................................................................................26 
7.1.9. .......... SMA-HI ......................................................................................................................26 
7.2. ............. Statistical Analyses .....................................................................................................26 
7.3. ............. Testing Statistical Assumptions Including Comparability at Baseline .......................26 
7.4. ............. Statement of the Null and Alternate Hypotheses ........................................................27 
7.5. ............. Subgroup Analyses .....................................................................................................27 
7.6. ............. Multiple Comparisons and Multiplicity......................................................................27 
7.7. ............. Analysis of the Efficacy Endpoints ............................................................................28 
7.7.1. .......... Efficacy Analysis ........................................................................................................28 
7.7.2. .......... Sensitivity Analyses of the Primary Efficacy Results ................................................28 
7.8. ............. Analysis of the Efficacy Endpoints based on Exposure .............................................28 
7.8.1. .......... Analysis Based on Concentration ...............................................................................28 
7.8.2. .......... Analysis Based on Concentration Bin ........................................................................28 
7.9. ............. Summary of Reasons for Efficacy Non-Evaluability/Exclusion from 
Efficacy Analyses .......................................................................................................28 
8. ................ SAFETY AND TOLERABILITY ..............................................................................29 
8.1. ............. Adverse Event Preferred Term and Body/Organ System Summary Tables ...............29 
8.1.1. .......... Summaries of Adverse Event Incidence Rates for All Patients .................................29 
8.1.2. .......... Summaries of Adverse Incidence Rates for Serious Adverse Events (SAE), 
Adverse Event Dropouts, and Death ..........................................................................29 
8.2. ............. Total Duration of Therapy, Average Daily Dose, Maximum Daily Dose, 
Final Daily Dose of Study Medication, and Compliance ...........................................29 


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8.3. ............. Concomitant and Other Medications ..........................................................................29 
8.4. ............. Routine Laboratory Data ............................................................................................30 
8.5. ............. Vital Signs ..................................................................................................................30 
8.6. ............. Electrocardiogram .......................................................................................................31 
8.7. ............. Physical Examination .................................................................................................32 
8.8. ............. Neurological Examinations ........................................................................................32 
8.9. ............. Beck Depression Inventory (BDI®) ............................................................................32 
8.10. ........... Study Termination Status ...........................................................................................33 
9. ................ PHARMACOKINETIC ANALYSES ........................................................................34 
9.1. ............. Pharmacokinetic Analyses ..........................................................................................34 
9.2. ............. Statistical Analyses of Pharmacokinetic Data ............................................................34 
10. .............. COMPUTER METHODS ..........................................................................................35 
11. .............. CHANGES TO ANALYSES SPECIFIED IN PROTOCOL .....................................36 
12. .............. STATISTICAL CODES .............................................................................................37 
13. .............. REFERENCES ...........................................................................................................41 
APPENDIX A. ANALYSIS VISIT WINDOWS .......................................................................42 
 
LIST OF TABLES 
Table 1: 
Analysis Set and Summary Level ...............................................................................18 
Table 2: 
Criteria of Clinically Significant Vital Signs..............................................................31 
Table 3: 
Criteria of Clinically Significant ECG .......................................................................32 
 
 
 


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LIST OF ABBREVIATIONS 
Abbreviation 
Term 
6MWT 
6-minute walk test 
AE 
 
adverse event 
ALT 
alanine aminotransferase (alanine transaminase) 
ANOVA 
analysis of variance 
AST  
aspartate aminotransferase (aspartate transaminase) 
AUC 
area under the plasma concentration-time curve 
BID 
twice daily 
BDI 
Beck Depression Inventory 
BMI 
body mass index 
CI 
confidence interval 
Cmax  
maximum observed plasma concentration 
Ctrough 
pre-dose plasma concentration 
eCRF  
electronic case report form 
CTCAE 
Common Terminology Criteria for Adverse Events 
CV 
coefficient of variation 
DMC 
Data Monitoring Committee 
ECG  
electrocardiogram 
FDA  
Food and Drug Administration 
FVC 
forced vital capacity 
HFMS-E 
Hammersmith Functional Motor Scale-Expanded 
ICF 
 
informed consent form 
ICH  
International Conference on Harmonisation 
IUD 
intrauterine device 
IUS 
intrauterine system 
MedDRA 
Medical Dictionary for Regulatory Activities 
MEP 
maximum expiratory pressure 
MIP 
maximum inspiratory pressure 
NCI 
National Cancer Institute 
PD                    
pharmacodynamic 
PDS 
pharmacodynamic analysis set 
PK 
 
pharmacokinetic 


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Abbreviation 
Term 
PKS 
pharmacokinetics analysis set 
QTc 
corrected QT interval 
PNCR 
Pediatric Neuromuscular Clinical Research Group 
RULM 
revised upper limb module 
SAE 
serious adverse event 
SD 
standard deviation 
SMA 
spinal muscular atrophy 
TEAE 
treatment emergent adverse event 
TUG 
timed up and go 
ULN 
upper limit of normal 
WHO              
World Health Organization 
 


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1. 
INTRODUCTION 
The purpose of this statistical analysis plan (SAP) is to provide a technical elaboration of the 
planned analyses and detailed data displays to be included in the Clinical Study Report (CSR) for 
the CY 5021 protocol amendment 03 dated March 16, 2018. 
This SAP was developed in accordance with ICH E9 guideline. All decisions regarding final 
analysis, as defined in this SAP document, will be made prior to unblinding of the study data. 
Any additional analyses performed after unblinding will be deemed exploratory. Further study 
information can be found in the protocol. 


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2. 
STUDY OBJECTIVES AND ENDPOINTS 
2.1. 
 Study Objectives 
2.1.1. 
Primary Objective 
The primary objective of this study is to determine the potential pharmacodynamics (PD) effects 
of CK-2127107 suspension after multiple oral doses in patients with SMA.   
2.1.2. 
Secondary Objectives 
The secondary objectives of this study are:  
• To evaluate the safety and tolerability of multiple doses of CK-2127107 administered 
orally to SMA patients 
• To evaluate the pharmacokinetics (PK) of CK-2127107 administered orally to SMA 
patients 
2.2. 
Study Endpoints 
2.2.1. 
PD Endpoints 
• Potential PD effects including change from baseline and slope of change of measures 
of muscle strength and function, including forced vital capacity (FVC), maximum 
inspiratory pressure (MIP)/maximum expiratory pressure (MEP), muscle strength, 
Hammersmith Functional Motor Scale-Expanded (HFMS-E), revised upper limb 
module (RULM), timed up and go (TUG) Test, 6-Minute Walk Test (6MWT), 
patient/investigator’s global assessment, and SMA-HI (Health Index). 
2.2.2. 
Safety Endpoints 
• Safety and tolerability endpoints including adverse events, clinical lab tests including 
creatinine, vital signs, ECG, physical and neurological examinations, and Beck 
depression inventory. 
2.2.3. 
PK Endpoints 
• PK parameters of CK-2127107 including Cmax, Ctrough, averaged Ctrough, and AUC0-12. 


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3. 
STUDY DESIGN 
3.1. 
Summary of Study Design 
This is a Phase 2, double-blind, randomized, placebo-controlled, multiple dose study in two 
sequential ascending dose cohorts of patients with SMA. Within each cohort, approximately 36 
patients will be randomized 2:1 to CK-2127107 versus placebo, stratified by ambulatory versus 
non-ambulatory status. Patients in Cohort 1 will receive CK-2127107 150 mg or placebo single 
dose on Day 1 and then twice daily (BID) for remainder of 8 weeks. Patients in Cohort 2 will 
receive CK-2127107 450 mg (or lower) or placebo single dose on Day 1 and then twice daily 
(BID) for remainder of 8 weeks. 
The study was designed to enroll approximately 18 ambulatory and 18 non-ambulatory patients 
for each cohort. After 30 patients in Cohort 1 complete dosing, the safety and PK data available 
at that time from Cohort 1 will be reviewed, to confirm the dose level or reduce the dose level of 
CK-2127107 to be administered in Cohort 2. 
There will be a total of seven study visits for patients in each cohort: 
 
3.2. 
Definition of Study Drug 
CK-2127107, a small molecule activator of the fast skeletal muscle troponin complex, is being 
developed to improve skeletal muscle function in disease states associated with muscular 
weakness and/or muscle fatigue.   
Study drug will be supplied to the sites as CK-2127107 Granules for Oral Suspension and 
Placebo for CK-2127107 Granules for Oral Suspension. Study drug will be constituted by the 
site pharmacy for patient use. 
3.3. 
Sample Size Consideration 
3.3.1. 
Sample Size Justification 
With a two-tailed alpha error of 0.05, 72 patients (24 on placebo and 48 on CK-2127107) are 
expected to complete the 8 weeks of double-blind treatment, which is estimated to provide 84% 


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power to detect a treatment difference of three points in HFMS-E score change from baseline to 
the end of the 8-week double-blind treatment between placebo and all CK-2127107 dose groups 
pooled with a common standard deviation of four points [1]. 
3.3.2. 
Sample Size Re-estimation 
Replacement patients will be enrolled as necessary to ensure that at least 36 patients complete 
each Cohort and are evaluable for PD effect of CK-2127107. Re-estimation of sample size was 
not planned for this Phase 2 study. 
3.4. 
Randomization 
In each cohort, 36 patients will be centrally randomized 2:1 to CK-2127107 versus placebo, 
stratified by ambulatory versus non-ambulatory status. 
3.5. 
Clinical Assessments 
Clinical assessments of all visits are listed in the protocol (see Schedule of Events in Protocol 
Amendment 03). 
 


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4. 
PLANNED ANALYSES 
4.1. 
Interim Analyses 
4.1.1. 
Dose Level Review 
After approximately 30 patients in Cohort 1 complete dosing schedule, the PK data of Cohort 1 
available at that time will be analyzed by an external unblinded clinical pharmacologist to 
generate a PK package of tables and figures of summary statistics of the concentration and 
derived pharmacokinetic parameters. This package only containing aggregate blinded PK 
summary data will be sent to the Sponsor. No individual concentration data or PK parameters 
will be provided to the Sponsor. A snapshot of the clinical data for these 30 patients in Cohort 1 
will be downloaded from the EDC. Cytokinetics will generate a package of tables, listings and 
figures of aggregate blinded safety data. The two packages will be reviewed by the Dose Level 
Review Committee consisting of representatives of the Sponsor, the Sponsor’s collaborator 
(Astellas), and lead Principal Investigator at a dose level review meeting. Based on this review, 
the dose level for Cohort 2 will be recommended. 
4.1.2. 
DMC Meeting 
After the last patient in Cohort 1 completes 2 weeks of dosing, a snapshot of the clinical data of 
all patients in Cohort 1 available at this point will be downloaded from the EDC. The unblinded 
statistician will generate a DMC data package of tables, listings and figures for safety data using 
the actual randomized treatment assignment codes. The pharmacokinetic data presented for the 
dose level review will also be included along with the safety data. The package will be sent to 
the DMC directly for review, together with the dose level review recommendation for their 
endorsement. The DMC activities are described in the DMC charter. If the DMC endorses the 
dose level recommendation for Cohort 2, the enrollment for Cohort 2 will start immediately. 
4.1.3. 
Possible Interim Analysis 
If the aggregate blinded data do not allow a decision to proceed to Cohort 2 to be made, the 
database for Cohort 1 will be locked.  An unblinded interim analysis will be conducted and the 
recommendation on how to proceed forwarded to the DMC before Cohort 2 is commenced.   
In addition, upon completion of dosing in Cohort 1 or Cohort 2, the database may be locked or 
frozen and an interim analysis of the data may be conducted for planning future development. 
The interim analysis will analyze all safety and efficacy endpoints using the same method as the 
final analysis outlined in this SAP.  
4.2. 
Final Analyses 
The final analysis will be conducted after all patients have either completed all the scheduled 
study visits or have early terminated from the study. At that time, the database will be cleaned 
and locked. All endpoints will be analyzed based on the final data after the database is locked. 


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Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
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5. 
GENERAL CONSIDERATIONS FOR DATA ANALYSES AND 
HANDLING 
5.1. 
General Summary Table and Individual Patient Data Listing 
Considerations 
Summary tables will present descriptive statistics such as mean, standard deviation, median, 
minimum, maximum for continuous variables, and number of patients, number of events, and the 
percentage, overall and by treatment, dose level, and ambulatory status in the planned analysis 
sets. For model based analysis, least square mean, difference of least square means between 
CK-2127107 and placebo, their standard errors and 95% confidence intervals, and two-sided p-
values for the relative statistical inferences will be presented. Assumptions for statistical models 
will be evaluated. If assumptions are substantially violated, alternative analysis methods will be 
considered. Missing data will not be imputed unless specified. No adjustments for multiple 
comparisons will be made. 
Listings will provide patient ID, demographics, dose level assigned and other relevant items, and 
sorted by patient ID and date of assessment. 
5.2. 
General Post Text Summary Table and Individual Patient Data 
Listing Format Considerations 
Post text summary tables and individual patient data list will be formatted through programming. 
5.3. 
Data Management 
Data will be entered into clinical database with programmed edit checks to ensure integrity. 
Adverse events and concomitant medications will be coded and each unique term will be 
reviewed. 
5.4. 
Data Presentation Conventions 
Continuous variables (e.g. age) are summarized using descriptive statistics (the number of 
patients with available data, the mean, standard deviation (SD), median and minimum and 
maximum). Categorical variables (e.g. race) are summarized using counts and percentages. 
Percentages are calculated using the total patients per dose level. 
The following conventions are applied to all data presentations and summaries. 
• For continuous variables, all mean and median values are formatted to one more 
decimal place than the measured value. Standard deviation values are formatted to 
two more decimal places than the measured value. Minimum and maximum values 
are presented with the same number of decimal places as the measured value. 
• For categorical variables, the number and percentage of responses are presented in the 
form XX (XX.X%) where the percentage is in the parentheses. 
• Date variables are formatted as DDMMMYYYY for presentation. Time is formatted 
in military time as HH:MM for presentation. 


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• P-values, if applicable, will be presented to 4 decimal places. If the p-value is less 
than 0.0001 then it will be presented as <0.0001. If the rounded result is a value of 
1.000, it will be displayed as >0.9999. 
• Unless otherwise stated, any statistical tests performed will use 2-sided tests at the 5% 
significance level. 
The table and listing shells and table of contents as part of this SAP provide the expected layout 
and titles of the tables, listings and figures. Any changes to format, layout, titles, numbering, or 
any other minor deviation will not necessitate a revision to the SAP nor will it be considered a 
deviation from planned analyses. Only differences in the analysis methods or data handling will 
necessitate such documentation. The appropriate listings supporting the tables will be included 
and not specified in the individual sections throughout the document. 
5.5. 
Analysis Populations  
5.5.1. 
Safety Analysis Set  
The safety population will consist of all patients who receive at least one dose of study drug. 
5.5.2. 
Pharmacokinetics Analysis Set (PKS) 
The PK population will consist of all patients who have at least one evaluable PK parameter, 
provided they have no major protocol violations that could affect the PK of CK-2127107.  
5.5.3. 
Pharmacodynamic Analysis Set (PDS) 
The PDS consists of all patients who have at least one non-missing post-baseline assessment of 
the PD endpoints, provided they have no major protocol violations that could affect the PD effect 
of CK-2127107. 
5.5.4. 
Use of Analysis Sets in Different Analyses and Summary Level 
The analysis datasets to be used are described in the table below: 
Table 1: 
Analysis Set and Summary Level 
Analyses 
Analysis Set 
Patient Disposition (Section 7.1) 
All Randomized Patients, Safety  
Study Population (Section 7) except for 7.1 Patient 
Disposition 
Safety, PDS 
Efficacy (PD effect) Analyses (Section 8) 
PDS 
Safety and Tolerability (Section 9) 
Safety 
PK Analyses (Section 10) 
PKS 
 


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5.6. 
Baseline Definition 
Baseline assessments are defined as the last non-missing result prior to administration of the first 
dose of study drug, and will be identified by comparing both date and time of an assessment with 
that of the first dose. If ‘time’ of an assessment was not collected, baseline assessments can be 
identified based on ‘date’ only: the last non-missing result collected on or prior to the first dosing 
date will be selected. 
5.7. 
Derived and Transformed Data 
5.7.1. 
Baseline Age 
Baseline age in years will be collected at screening. 
5.7.2. 
Study Day 
If the date of interest occurs on or after the first dose date then study day will be calculated as 
(date of interest – date of first dose) + 1. If the date of interest occurs prior to the first dose date 
then study day will be calculated as (date of interest – date of first dose). There is no study day 0. 
5.7.3. 
Change from Baseline 
Change from baseline is calculated as (post-baseline result – baseline result). 
Percent change from baseline is calculated as: (change from baseline / baseline result) x 100(%). 
If either the baseline or the post-baseline result is missing, the change from baseline and/or 
percentage change from baseline is set to missing as well. 
5.7.4. 
Visit Windows 
The nominal visits will be used for all analyses. The unscheduled and early termination visits 
will be assigned to the closest nominal visit if data at the nominal visit is not available. See 
Appendix A for analysis visit windows.  
5.7.5. 
Multiple Assessments 
For assessments other than clinical laboratory tests, vital signs and ECG, if there are multiple 
assessments of the same nominal visit, the one closest to the target date of the nominal visit will 
be used. For repeated test results such as clinical laboratory, vital signs and ECG, the last result 
will be used. 
5.7.6. 
Dose of Study Drug 
The study drug is in the form of granules for oral suspension, to be constituted at the clinical site 
prior to dispensation, and each dose of study drug was given through 9 mL of oral suspension. 
The dose of CK-2127107 will be derived as follows: 
• The dose of CK-2127107 for the placebo groups in Cohorts 1 and 2 will be set to 0. 
• The dose of CK-2127107 for the CK-2127107 group of Cohort 1 will be calculated 
as (the amount of drug taken in mL / 9 mL) x 150 mg.  


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 20 
• The dose of CK-2127107 for the CK-2127107 group of Cohort 2 will be calculated 
as (the amount of drug taken in mL / 9 mL) x 450 mg.  
5.7.7. 
Percent Predicted Forced Vital Capacity (FVC)  
The forced vital capacity (FVC) is used to evaluate the pulmonary status. It measures how much 
air a person can exhale during a forced breath. The percent predicted FVC presents the test result 
as a percent of the predicted values for patient based on gender, age, height and race. It is 
calculated as (trial FVC / predicted FVC) x 100%. 
The predicted FVC is calculated using the prediction equations developed by Knudson (Knudson 
et al., 1983), which factor the characteristics of gender, age, height and race into the prediction. 
The equations are shown below: 
Gender 
Age 
Predicted FVC (liter) 
Male 
< 25 
-6.8865 + 0.0739 x Age (yr) + 0.0590 x Height (cm)  
≥ 25 
-8.7818 - 0.0298 x Age (yr) + 0.0844 x Height (cm) 
Female 
<20 
-4.4470 + 0.0699 x Age (yr) + 0.0416 x Height (cm) 
20 to <70 
-3.1947 - 0.0169 x Age (yr) + 0.0444 x Height (cm)  
≥ 70 
-0.1889 - 0.0296 x Age (yr) + 0.0313 x Height (cm)  
For African Americans, the predicted FVC is calculated using the above equations multiplying 
by an additional number, 0.88, to account for the racial difference in lung function. If the 
standing height is not measurable, the height can be derived from the ulna length (measured 
using calipers) as follows:  
Gender 
Derived Height (cm) 
Male 
4.605 x length of ulna (cm) + 1.308 x Age (yr) + 28.003 
Female 
4.459 x length of ulna (cm) + 1.315 x Age (yr) + 31.485 
Note: If a patient is above 18 years old, 18 is used as the patient’s age in the calculation. 
 
For each clinical visit, a patient’s FVC was evaluated in 3 trials. The best result among the 3 
trials will be used for analysis.  
5.7.8. 
Muscle Strength Mega Score 
Patients’ muscle strength was measured bilaterally using HHD for the three muscle groups: 
elbow flexion, knee extension and shoulder abduction. Muscle strength was evaluated twice for 
each measured body location. The maximum muscle strength of the two measurements is 
identified and transformed as a percent change from baseline using the equation: [(post-baseline 
value – baseline value) / baseline value] x 100. The transformed muscle strength will be set to 
missing if the baseline value is zero. 


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Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
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The mega-score is a composite score that averages strength across muscle groups. It is calculated 
as the mean of the non-missing transformed muscle strength scores among the six measured 
body locations, i.e., from the three muscle groups measured bilaterally.  
5.7.9. 
Hammersmith Functional Motor Scale-Expanded (HFMS-E) PNCR Total Score 
Expanded Hammersmith Functional Motor Scale (HFMS-E) was presented by the Pediatric 
Neuromuscular Clinical Research Group (PNCR) with an add-on module to distinguish motor 
skills among individuals with SMA Types II and III. HFMS-E evaluates current level of 
independent mobility and motor skills using a total of 33 test items with a score ranges from 
0 (worse) to 2 (better) for each item. The PNCR total score is calculated as the sum of the scores 
among the 33 test items, and has a range from 0 to 66.  
5.8. 
Handling of Missing Data 
5.8.1. 
Missing Efficacy Endpoints 
If percentage of missing values of efficacy endpoints is ≤ 20%, the efficacy analysis will be 
performed by mixed effect model as specified. The model will provide unbiased results without 
imputation given the missing patterns are missing at random (MAR). Even though the 
assumptions are not testable, no sensitivity analyses using different missing pattern assumptions 
will be needed due to the small percentage of missing data and the relatively exploratory nature 
of this phase 2 study. 
5.8.2. 
Missing Start and Stop Dates for Prior and Concomitant Medication 
No imputation of missing/partial dates will be performed. The available year or year and month 
in a partial date will be used and will be compared to first dosing year, month and day to 
determine whether to include the medication in the medication history or as a concomitant 
medication. If the available data do not give sufficient information to classify the medication, the 
medication will be classified as concomitant medication. 
5.8.3. 
Missing Onset and Stop Dates for Adverse Events 
For AEs with incomplete date information recorded in the eCRF, the imputation will follow the 
following algorithm: 
1. For missing AE onset Day and Time: 
• If the AE onset Day is missing and the Month of AE onset is known, then the first 
day of the month of AE onset will be the imputed date of AE onset. 
• If no AE onset information is available, then the first dosing date will be the imputed 
AE onset date. 
2. For missing AE end Day and Time: 
• If the AE end Day is missing and the AE end Month is earlier or later than that of the 
Follow-Up Visit, then the last day of the AE end month will be the imputed as the AE 
end date. 


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• If the AE end Day is missing and the AE end month is the same as that of the Follow-
Up Visit, then the date of the Follow-Up Visit will be the imputed as the AE end date. 
• If no AE end information is available, then 
− For patients who discontinued early from study drug, the imputed AE end date 
will be on the later of the last dosing date + 28 days or the last visit or contact date. 
− For patients who completed the study, the imputed AE end date and time will be 
the date of the Follow-Up Visit. 
 


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6. 
STUDY POPULATION 
6.1. 
Patient Disposition 
The number and percentage of patients who are randomized, who received at least one dose of 
study drug, who complete the planned dose level, and who prematurely discontinue from the 
planned dose level, will be presented overall and by treatment, dose level, and ambulatory status. 
Reasons for premature discontinuation as recorded on the termination page of the eCRF will be 
summarized as well. 
All patients of the safety population including patients who discontinue prematurely from the 
study will be listed with their date of screening, date of last visit, dates of first and last dose, 
demographic information including age, sex and race, and dose at the time of discontinuation, 
date of early termination, and reasons for discontinuation. 
6.2. 
Screen Failures 
Data collected from screen failures, such as age, gender, ambulatory status and screening date, 
can be found in the patient summary report of the interactive web response system (IWRS) for 
this study.  
6.3. 
Protocol Deviations 
Protocol deviation is any divergence from the protocol that impacts a patient's safety, rights, or 
welfare or materially reduces the quality or completeness of the data. 
Number and percentage of randomized patients meeting any protocol deviation criteria will be 
listed. The list will include patient id, visit (if applicable), severity of deviation (major/minor), 
and description of deviation.  
The main significant protocol deviations will be collected in the protocol deviation CRF page as 
follows: 
1 – Entered into the study even though they did not satisfy entry criteria  
2 – Developed withdrawal criteria during the study and was not withdrawn 
3 – Received wrong treatment or incorrect dose 
4 – Received excluded concomitant treatment 
Other protocol deviations such as unreported or underreported serious adverse events and 
improper breaking of the blind will be identified during the study monitoring and clinical/drug 
safety monitoring. 
6.4. 
Demographic and Baseline Characteristics 
Demographic parameters and baseline characteristics which include age, sex, race, ethnicity, 
height, weight, BMI, tobacco and alcohol use, etc. will be summarized overall and by treatment, 
dose level, and ambulatory status. Patient listings will be provided. 


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Descriptive statistics in terms of number of patients, mean, median, standard deviation and range 
will be presented for continuous variables. Frequency distributions in terms of number and 
percentage of patients will be presented for categorical variables. 
6.5. 
Listing of Patient Inclusion and Exclusion Criteria 
A listing of patients who enrolled but did not satisfy all inclusion/exclusion criteria will be 
provided. 
6.6. 
Medical History and Medical Conditions Present at Entry 
Medical history data will be summarized overall and by treatment, dose level, and ambulatory 
status for the safety population. The number and percentage of patients within each medical 
history item will be summarized by system organ class and preferred term. Patient listings with 
start date, stop date, system organ class, and preferred term will be provided. 
Medical history data regarding Spinal Muscular Atrophy will be summarized for the safety 
population. The number and percentage of patients with or without family history and the type of 
spinal muscular atrophy history will be provided. Patient listing with symptom onset date, 
confirmed diagnosis date and information regarding gene mutations will be provided. 
6.7. 
Prior Medication History and Medications Present at Entry 
Prior medication history and medication present at entry will be summarized separately from 
concomitant medications. 
6.8. 
Baseline Physical Examination 
Baseline physical examination will be summarized and listed. 
6.9. 
Baseline Vital Signs 
Baseline vital signs will be summarized and provided in the table along with post-baseline vital 
signs. 
6.10. 
Baseline Laboratory Data 
Baseline laboratory data will be summarized and provided in the table along with post-baseline 
laboratory data. 
6.11. 
Baseline Efficacy Evaluations 
Baseline efficacy measures will be included in efficacy evaluation. 


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7. 
EFFICACY  
7.1. 
General Considerations 
In this Phase 2 study, analyses to explore the association between pharmacodynamics endpoints 
and actual dose, plasma concentration or plasma concentration bin will be performed. They are 
considered as the first step to establish the efficacy of CK-2127107. All p-values provided will 
be considered nominal and are for descriptive purposes. 
The efficacy analyses of the following endpoints will be performed on the Pharmacodynamic 
Analysis Set (PDS).  
7.1.1. 
Maximum Forced Vital Capacity (FVC) 
• Change in FVC from baseline to the end of Week 8 
• Slope of change in FVC from baseline to the end of Week 8  
7.1.2. 
Maximum Inspiratory Pressure (MIP) / Maximum Expiratory Pressure (MEP) 
• Change in MIP/MEP from baseline to the end of Week 8 
• Slope of change in MIP/MEP from baseline to the end of Week 8 
7.1.3. 
Muscle Strength Measured by Hand-Held Dynamometry 
• Change in muscle strength mega-score from baseline to the end of Week 8 
• Slope of change in muscle strength mega-score from baseline to the end of Week 8 
7.1.4. 
Hammersmith Functional Motor Scale-Expanded (HFMS-E)  
• Change in HFMS-E PNCR total score from baseline to the end of Week 8 
• Slope of change in HFMS-E PNCR total score from baseline to the end of Week 8 
7.1.5. 
Revised Upper Limb Module (RULM) 
• Change in upper limb module-revised score from baseline to the end of Week 8 
• Slope of change in upper limb module-revised score from baseline to the end of Week 8 
7.1.6. 
Timed Up and Go (TUG) Test for Ambulatory Patients 
• Change in timed up and go from baseline to the end of Week 8 
• Slope of change in timed up and go from baseline to the end of Week 8 
7.1.7. 
6-Minute Walk Test (6MWT) For Ambulatory Patients 
• Change in 6-Minute Walk distance from baseline to the end of Week 8 
• Slope of change in 6-Minute Walk distance from baseline to the end of Week 8 


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7.1.8. 
Global Assessments 
Responder is defined as an improvement response at the end of Week 8  
• Proportion of responders of Global Assessments at the end of Week 8 
• Odds ratios of responders of Global Assessments at end of Week 8 between active 
treatment or each active dose and placebo 
7.1.9. 
SMA-HI 
• Change in SMA-HI total score and sub-scores from baseline to the end of Week 8 
 
7.2. 
Statistical Analyses 
The change from baseline in continuous endpoints at the end of Weeks 1, 2, 4 and 8 will be 
analyzed by a mixed effect model that accounts for within patient correlation with unstructured 
covariance matrix. The covariates will include dose level, visit, interaction between dose level 
and visit, ambulatory status, and the baseline value of the variable being analyzed. Least square 
means and difference in least square means of the pooled active dose level or each dose level 
relative to placebo will be presented together with their standard errors, 95% CIs and p-values. 
The change from baseline of continuous endpoints will also be analyzed by ambulatory status 
with the same covariates in the model described above, except that the covariate “ambulatory 
status” will be removed from the model mentioned above. Categorical endpoints of global 
assessments and other PD parameters at available visits and follow-up will be analyzed by a 
logistic regression model that accounts for within patient correlation with unstructured 
covariance matrix. The covariates will include dose level, visit, interaction between dose level 
and visit and ambulatory status. Odds ratio, standard error and 95% CI, p-value of the odds ratio 
will be presented. 
Slope of change from baseline for continuous endpoints will be analyzed by a mixed effect 
model with no intercept that will include dose level, days from the first dose of study treatment, 
interaction between dose level and days from the first dose of study treatment, ambulatory status, 
and baseline value of the variable being analyzed. The model will use days from the first dose of 
study treatment as a random covariate. Least square means and difference in least square means 
among dose levels of the slope will be presented together with their standard errors, 95% CIs and 
p-values.  
Inferential statistical tests will be two-sided and will be performed at alpha levels of 0.05 and 
0.10 to declare the significance of main effects and interaction effects, respectively. 
The ambulatory status will be removed from the model for the PD parameters Timed Up and Go 
(TUG) test and 6-Minute Walk Test (6-MWT) which are assessed for ambulatory patients only. 
7.3. 
Testing Statistical Assumptions Including Comparability at Baseline 
Not applicable. 


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Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
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7.4. 
Statement of the Null and Alternate Hypotheses 
The null and alternate hypotheses are stated: 
• Ho:  active dose (all dose levels combined) does not have a differential effect on the 
assessments of efficacy compared to placebo.  
• HA:  active dose (all dose levels combined) does have a differential effect on the 
assessments of efficacy compared to placebo. 
7.5. 
Subgroup Analyses 
Although the sample size is small for this study, analyses by the following subgroups will be 
performed for key efficacy, PK, PD analyses, if data permit. Analyses presented by tertiles may 
be replaced with that presented by < median and ≥ median, as needed, if there are no sufficient 
data to produce model estimates. 
• Age (12 to < 18 years old vs. ≥ 18 years old)  
• SMA type (Type II vs. Types III and IV)  
• Ambulatory status (ambulatory patients vs. non-ambulatory patients) 
• Baseline HFMS-E PNCR total score (by tertiles) 
• Baseline RULM score (by tertiles) 
• Baseline Percent Predicted FVC (by tertiles) 
• Baseline MEP (by tertiles) 
• Baseline MIP (by tertiles) 
• Baseline results of 6-Minute Walk Test (6MWT) (by tertiles) for ambulatory patients 
• Baseline results of Timed Up & Go (TUG) Test (by tertiles) for ambulatory patients 
• Baseline results of SMA Health Index (SMA-HI) (by tertiles) 
In addition, the following subgroup analyses will also be conducted by ambulatory status: 
• Baseline HFMS-E PNCR total score (by tertiles) 
• Baseline RULM score (by tertiles) 
• Baseline Percent Predicted FVC (by tertiles) 
• Baseline MEP (by tertiles) 
• Baseline MIP (by tertiles) 
• Baseline results of SMA Health Index (SMA-HI) (by tertiles) 
7.6. 
Multiple Comparisons and Multiplicity 
Not applicable for this phase 2 study. 


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Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
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7.7. 
Analysis of the Efficacy Endpoints 
7.7.1. 
Efficacy Analysis 
All pharmacodynamic endpoints contribute to the efficacy of CK-2127107 for this Phase 2 study.  
The difference in least square means of the change from baseline at the end of Week 8 and the 
slope of change between patients on active dose (all dose levels combined) and placebo for the 
continuous endpoints, and the odds ratio at the end of Week 8 of patients on active dose (all dose 
levels combined) versus placebo for categorical endpoints will contribute to the efficacy 
analysis.  The 95% confidence intervals and p-values will be presented. 
7.7.2. 
Sensitivity Analyses of the Primary Efficacy Results 
Not applicable 
7.8. 
Analysis of the Efficacy Endpoints based on Exposure 
7.8.1. 
Analysis Based on Concentration 
The change in continuous pharmacodynamics endpoints from baseline to the end of Weeks 1, 2, 
4 and 8 will be analyzed by a mixed effect model that accounts for within patient correlation 
with unstructured covariance matrix. The covariates will include a PK parameter (Ctrough, Cmax, 
averaged Ctrough, or Week 8 AUC 0-12), plus visit, interaction between visit and the PK parameter, 
ambulatory status and the baseline value of the variable being analyzed. Least square means, the 
difference of LS Means, and their 95% confidence intervals will be presented, as well as the p-
values. The categorical endpoints will be analyzed by a logistic regression model that accounts 
for within patient correlation with unstructured covariance matrix. The covariates will include a 
PK parameter (Ctrough, Cmax, averaged Ctrough, or Week 8 AUC 0-12), plus visit, ambulatory status 
and the baseline value of the variable being analyzed. Odds ratios and their 95% confidence 
intervals will be presented. P-values will also be presented. 
7.8.2. 
Analysis Based on Concentration Bin 
Similar analyses will be performed with Ctrough, averaged Ctrough, Cmax, or AUC 0-12 as a continuous 
variable replaced by concentration or AUC bin as a categorical variable. The cutoffs for the bins 
will be determined upon the distribution of PK concentration data to ensure appropriate number 
of bins with roughly equal number of observations. 
7.9. 
Summary of Reasons for Efficacy Non-Evaluability/Exclusion from 
Efficacy Analyses 
Reasons for excluding individual patients from the PDS will be listed. 


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8. 
SAFETY AND TOLERABILITY 
8.1. 
Adverse Event Preferred Term and Body/Organ System Summary 
Tables 
Only Treatment-Emergent Adverse Events (TEAEs) will be summarized. They are AEs which 
are not present prior to the first dose of study drug and start thereafter, or present prior to the first 
dose of study drug and increase in severity thereafter. 
The Medical Dictionary for Regulatory Activities (MedDRA) will be used to classify Adverse 
Events (AE) by system organ class and preferred term. The severity of adverse events will be 
evaluated using the National Cancer Institute Common Terminology Criteria for Adverse Events 
(NCI-CTCAE) Version 4.0. Coding will be performed using version 18.0 of the MedDRA 
coding dictionary. 
8.1.1. 
Summaries of Adverse Event Incidence Rates for All Patients 
The number and percentage of patients with TEAEs will be summarized by system organ class, 
preferred term, treatment, dose level and overall, and will be further tabulated by CTCAE grade. 
For a specific TEAE, the patient will be counted only once if the TEAE was reported more than 
once per patient. For the summarization by CTCAE grade or relationship to study drug, if more 
than one event occurred with the same preferred term per patient, the patient will be counted 
only once for that preferred term using the highest severity and closest relationship to the study 
drug. Listings of all TEAEs by patient will also be presented. 
8.1.2. 
Summaries of Adverse Incidence Rates for Serious Adverse Events (SAE), 
Adverse Event Dropouts, and Death 
Serious AEs (SAE) and AEs leading to treatment discontinuation or death will also be 
summarized by system organ class, preferred term, treatment, dose level, and overall. Listings 
will be presented, if appropriate, for patients who died and/or experienced serious AEs and for 
patients who discontinued due to TEAEs.   
8.2. 
Total Duration of Therapy, Average Daily Dose, Maximum Daily 
Dose, Final Daily Dose of Study Medication, and Compliance 
The duration and exposure of study drug will be summarized by dose level and overall for the 
safety population. Patient listing with date, day and time of dose, actual/average daily dose 
administered, reason for incorrect dose and dose interruption will be presented. 
8.3. 
Concomitant and Other Medications 
Medications other than the study drug reported on the eCRF will be summarized as concomitant 
medications for the safety population. Medications with an end date that is 7 days or more prior 
to the first dose of the study drug, or medications with a start date that is 30 days after the last 
dose of the study drug, will be excluded from the summary. The World Health Organization 
Drug dictionary will be used to classify medications by therapeutic class (ATC Class 3) and 
preferred name. If ATC Class 3 is not available, ATC Class 2 will be used in the summary. 
Coding will be performed using WHO Drug Dictionary Enhanced with Herbal June, 2015.   


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The number and percentage of patients who receive concomitant medication will be summarized 
by dose level, and therapeutic class and preferred term (using ATC Class Level III). Multiple 
drug usage by a patient will be counted only once in each category. 
CYP3A4 inhibitor within 7 days prior to first dose of study drug or CYP3A4 inducer within 
14 days prior to first dose of study drug will be summarized or listed. 
In addition, a listing with start/stop date, days relative to the start of therapy, dose / unit / route / 
frequency, indication and purpose of all medications taken from screening through the end of 
study will be provided. 
8.4. 
Routine Laboratory Data 
Clinical laboratory evaluations, including hematology, serum chemistry, and urinalysis as 
detailed in the protocol, will be collected at Screening, Day 1, End of Week 2 visit, End of Week 
8 visit, and at the Follow-Up Visit. Descriptive statistics of assessment value and change from 
baseline of laboratory parameters will be presented at each assessment point overall and by 
treatment, dose level, and ambulatory status. Baseline is defined as the last non-missing 
assessment value prior to study drug dosing. Repeat values will be used to replace the original 
value in the calculation of descriptive statistics. 
The number and percentage of patients with Potentially Clinically Significant (PCS) laboratory 
values will be presented overall and by treatment, dose level, and ambulatory status. The LLN 
(lower limit of normal) and ULN (upper limit of normal) provided by the laboratories will be 
used as the criteria for PCS. For each parameter, the denominator is the number of patients with 
non-PCS or missing baseline assessment and with at least one post baseline assessment; and the 
numerator is the number of patients with non-PCS or missing baseline assessment and with at 
least one post baseline PCS value including repeated and unscheduled measurements (subset of 
the denominator). Assessment at the Follow-up Visit will also be included in the summary. 
Clinical laboratory values will be listed. Values outside the Laboratory’s normal ranges will be 
flagged. Unscheduled laboratory values will be flagged. Potentially clinically significant 
abnormal values will be flagged. 
8.5. 
Vital Signs 
Vital signs, which include heart rate and blood pressure measured at resting condition (i.e. after 
the patient sits or has been supine for at least 3 minutes), and height, weight and ulna length will 
be obtained at Screening, Day 1, End of Weeks 1, 2, 4 and 8 visits, and at the Follow-Up Visit. 
Descriptive statistics of absolute values and changes from baseline of vital sign parameters will 
be presented at each assessment time point (BMI only at screening) overall and by treatment, 
dose level, and ambulatory status. Baseline is defined as the last assessment taken prior to study 
drug dosing. Repeat measurements will be used to replace the original values in the calculation 
of descriptive statistics. 
The number and percentage of patients with PCS vital signs will be presented by overall and by 
treatment, dose level, and ambulatory status using the criteria specified in Table 2. For each 
parameter, the denominator is the number of patients with non-PCS or missing baseline 
assessment and with at least one post baseline assessment; and the numerator is the number of 


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patients with non-PCS or missing baseline assessment and with at least one post baseline PCS 
value including repeated and unscheduled measurements (subset of the denominator). 
Assessment at Follow-up Visit will also be included in the summary. 
Oral temperature will be taken at Screening and will be presented in a listing. 
Individual vital signs will be listed with dose level, patient ID, and assessment time. Values 
outside the normal ranges will be flagged. Table 2 below lists vital sign normal rages. 
Table 2: 
Criteria of Clinically Significant Vital Signs 
Vital Sign Parameter 
Flag 
PCS Criteria 
Systolic Blood Pressure (mmHg) 
High 
≥ 160 mmHg 
Low 
≤ 80 mmHg 
Diastolic Blood Pressure (mmHg) 
High 
≥100 mmHg 
Low 
≤  50 mmHg 
Pulse (beat/min) 
High 
>120 beat/min 
Low 
≤50 beat/min 
Temperature (oC) 
High 
≥ 38 oC 
Low 
< 35 oC 
8.6. 
Electrocardiogram 
A 12-lead ECG, including ECG parameters of RR, PR, QRS, and QT intervals as well as 
significant findings will be obtained at Screening, Day 1, End of Week 2 visit, End of Week 8 
visit, and at the Follow-Up Visit. 
Descriptive statistics of absolute value and change from baseline of ECG parameters (PR 
interval, RR interval, QRS duration, QT interval, QTc interval [Bazett’s and Fridericia’s], 
Ventricular Heart Rate) will be presented at each assessment time overall and by treatment, dose 
level, and ambulatory status. Baseline is defined as the last assessment taken prior to study drug 
dosing. Repeat measurements will be used to replace the original values in the calculation of 
descriptive statistics. 
The number and percentage of patients with PCS ECGs will be presented overall and by 
treatment, dose level, and ambulatory status. ECG parameters are regarded as PCS if the value 
meets the criterion shown in Table 3. For each parameter, the denominator is the number of 
patients with non-PCS or missing baseline assessment and with at least one post baseline value; 
and the numerator is the number of patients with non-PCS or missing baseline assessment and 
with at least one post baseline PCS value including repeated and unscheduled measurements 
(subset of the denominator). Assessment at Follow-up Visit will also be included in the 
summary. 
12-lead ECG parameters (PR interval, QRS duration, QT interval, QTc interval [Bazett’s and 
Fridericia’s], Ventricular Heart Rate, and RR interval), will be listed with dose level, patient ID, 


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visit and assessment date and time. PCS ECG values will be flagged. ECG findings and 
interpretations will be listed as well. 
Table 3: 
Criteria of Clinically Significant ECG 
ECG Variable 
Units 
 
Normal Lower/Upper 
(L/U) Limit 
PCS High Values 
QRS Interval 
msec 
80 (U) 
≥ 120 
PR Interval 
msec 
200 (U) 
≥ 240 
QTcB Interval 
msec 
Males: 450 (U) 
Females: 460 (U) 
> 500 
QTcF Interval 
msec 
Males: 450 (U) 
Females: 460 (U) 
> 500 
Ventricular Heart Rate 
bpm 
50 (L) 
> 100 
8.7. 
Physical Examination 
A routine physical examination will be performed at Screening, and an abbreviated physical 
examination (consisting of an examination of general appearance, skin, lungs, cardiovascular and 
abdomen) will be performed at the Follow-Up Visit. 
Clinically significant findings in physical examinations will be reported and summarized as 
Medical History or Adverse Events, as appropriate. 
8.8. 
Neurological Examinations 
A neurological examination will be administered at Screening and at the Follow-Up Visit as 
described in the Study Manual. 
Number and percentage of normal and abnormal results in neurological examination will be 
provided by visit for each category described on CRF. Shift table will also be provided. 
Individual neurological examination results will be listed for each test chronologically by patient 
ID, visit, and the actual assessment date and time.   
8.9. 
Beck Depression Inventory (BDI®) 
The BDI will be assessed at all study visits as described in the Study Manual. This study uses a 
FastScreen version which is composed of 7 questions. When the test is scored, a value of 0 to 3 
is assigned for each answer and then the total score is compared to the following key to 
determine the depression severity: 
• 0–3: indicates minimal depression 
• 4–8: indicates mild depression 
• 9–12: indicates moderate depression 


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• 13–21: indicates severe depression 
Number and percentage of subjects by depression severity as derived from the above method will 
be provided by visit. Shift table will also be provided. A list will be provided with the actual 
assessment date and answers to all questions. 
8.10. 
Study Termination Status 
Number and percentage of patients who complete and prematurely discontinue planned study 
dosing will be presented together with reasons for premature discontinuation in the disposition 
table. The disposition listing will present the same information and the date of completion or 
premature discontinuation. 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 34 
9. 
PHARMACOKINETIC ANALYSES 
9.1. 
Pharmacokinetic Analyses 
PK analysis will be based on the PKS. For each patient, the following PK parameters and time to 
reach steady-state will be calculated, whenever possible, based on the plasma concentrations of 
CK-2127107 and its metabolites (if applicable) using non-compartmental PK methods:  
Cmax 
 
Maximum observed plasma concentration 
Ctrough  
Pre-dose plasma concentration 
AUC0-12 
Area under the plasma concentration-time curve from zero to 12 hours 
 
Since the PK samples were collected only up to Hour 6, the pre-dose sample will be used as the 
sample collected at Hour 12 to calculate AUC0-12. 
9.2. 
Statistical Analyses of Pharmacokinetic Data 
Descriptive statistics in terms of mean, standard deviation (SD), geometric mean, coefficient of 
variation (CV), median, and range will be provided for concentrations at all planned sampling 
time points and all PK parameters by dose level, ambulatory status, weight, adolescent (12 to < 
18 years old) and adult (≥ 18 years old) patients, and SMA type (SMA Type II vs. SMA Types 
III and IV), if data permits. Individual or mean concentrations over time will be graphically 
displayed. The least square difference of natural log-transformed Cmax, Ctrough and AUC0-12 at the 
end of Weeks 2 and 8 between adolescence (12 to < 18 years old) and adult (≥ 18 years old) 
patients and the associated 90% confidence interval (CI) will be examined using analysis of 
variance (ANOVA) model including terms of dose, age group, gender, and ambulatory status, 
using adult patients as the reference, respectively.  Back-transformation will provide point 
estimates and conventional 90% CIs for the geometric mean ratio of Cmax, Ctrough and AUC0-12 
between adolescent and adult patients. Similar method will be used to examine the differences in 
Cmax between ambulatory and non-ambulatory patients, controlling for dose, age, and gender, 
using ambulatory status as the reference. Graphs with PK parameters by dose will be provided 
for adolescent and adult patients. 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 35 
10. 
COMPUTER METHODS 
Statistical analyses will be performed using Version 9.4 (or newer) of SAS. SAS and all other 
SAS Institute Inc. product or service names are registered trademarks or trademarks of SAS 
Institute Inc. in USA and other countries. ® indicates USA registration. 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 36 
11. 
CHANGES TO ANALYSES SPECIFIED IN PROTOCOL 
No deviations from the protocol-specific statistical methods are planned.  
 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 37 
12. 
STATISTICAL CODES 
The following code will be used as the prototype of the codes that will be used for the final 
analysis of the study.  The final version of the statistical codes to be used will be determined 
prior to the database lock and will be documented in the specification document for the statistical 
report of the study.   
The ambulatory status is to be removed from the model for PD parameter Timed Up and Go 
(TUG) test and 6-Minute Walk Test (6-MWT). 
1. The SAS code to produce estimates of the effect of the three active dose levels (150 mg 
BID, 450 mg BID, 150 and 450 mg BID pooled) and placebo, and the difference between 
the three active dose levels and placebo: 
For continuous PD parameters: 
PROC MIXED data=work METHOD=REML; 
class <Patient> <Visit> <Dose level> <Ambulatory Status>; 
model <PD Parameter> = <Visit> <Dose level> <Interaction between Visit 
and Dose level> <Ambulatory Status> <Baseline Value of PD Parameter>/                  
ddfm=kenwardroger;  
repeated <visit>/subject=<Patient> type=un; 
lsmeans <Interaction between Visit and Dose level> /diff cl; 
lsmestimate <Interaction between Visit and Dose level> followed by 
appropriate syntax for 150 and 450 pooled and difference between 150 and 
450 pooled and placebo /e cl elsm; 
ods output LSMEstimates = lsme LSMeans=lsm Diffs=diffs; 
run; 
 
Note: Covariate <Ambulatory Status> will be removed for timed up and go and 6-
minute walk. 
 
For categorical PD parameters: 
PROC GENMOD data=work; 
class <Patient> <Visit> <Dose level> <Ambulatory Status>; 
model <PD Parameter> = <Visit> <Dose level> <Interaction between Visit 
and Dose level> <Ambulatory Status> /                               
dist=binomial link=logit;  
repeated subject=<Patient> type=un;  
lsmeans <Interaction between Visit and Dose level> cl diff; 
lsmestimate <Interaction between Visit and Dose level> followed by 
appropriate syntax for 150 and 450 pooled and difference between 150 and 
450 pooled and placebo /e cl elsm; 
ods output LSMEstimates = lsme LSMeans=lsm Diffs=diffs;  
run; 
 
2. The SAS code to produce the estimates of the effect of the three active dose levels (150 
mg BID, 450 mg BID, 150 and 450 mg BID pooled) and placebo, and the difference 
between the three active dose levels and placebo by ambulatory status: 
For continuous PD parameters: 
PROC MIXED data=work METHOD=REML; by <Ambulatory Status>; 
class <Patient> <Visit> <Dose level>; 
model <PD Parameter> = <Visit> <Dose level> <Interaction between Visit 
and Dose level> <Baseline Value of PD Parameter>/                               
ddfm=kenwardroger;  
repeated <visit>/subject=<Patient type=un; 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 38 
lsmeans <Interaction between Visit and Dose level>/diff cl; 
lsmestimate <Interaction between Visit and Dose level> followed by 
appropriate syntax for 150 and 450 pooled and difference between 150 and 
450 pooled and placebo /e cl elsm; 
 
 
ods output LSMEstimates = lsme LSMeans=lsm Diffs=diffs;run; 
 
Note: By <Ambulatory Status> analysis will not be performed for timed up and go 
and 6-minute walk. 
 
For categorical PD parameters: 
PROC GENMOD data=work; by <Ambulatory Status>; 
class <Patient> <Visit> <Dose level>; 
model <PD Parameter> = <Visit> <Dose level> <Interaction between Visit 
and Dose level> / dist=binomial link=logit;  
repeated subject=<Patient> type=un;  
lsmeans <Interaction between Visit and Dose level> /cl diff; 
lsmestimate <Interaction between Visit and Dose level> followed by 
appropriate syntax for 150 and 450 pooled and difference between 150 and 
450 pooled and placebo /e cl elsm;ods output LSMEstimates = lsme 
LSMeans=lsm Diffs=diffs;  
run; 
 
3. The SAS code to produce the estimate of the slope of the three active dose levels and 
placebo, and the difference between the three active dose levels and placebo: 
PROC MIXED data=work METHOD=REML; 
class <Patient> <Dose level> <Ambulatory Status>; 
model <Change from Baseline of PD Parameter> = <Days from First Dose> 
<Dose level> <Interaction between Days from First Dose and Dose level> 
<Ambulatory Status> <Baseline Value of PD Parameter> / ddfm=kenwardroger 
noint;  
 
random <Days from First Dose>/subject=<Patient> type=un; 
Estimate 'slope for placebo' <Days from First Dose> 1 <Interaction 
between Days from First Dose and Dose level> 1/cl e; 
Estimate 'slope for 150mg bid' <Days from First Dose> 1 <Interaction 
between Days from First Dose and Dose level> 0 1/cl e; 
Estimate 'slope for 450mg bid' <Days from First Dose> 1 <Interaction 
between Days from First Dose and Dose level> 0 0 1/cl e; 
Estimate 'slope for 150 and 450 pooled' <Days from First Dose> 1 
<Interaction between Days from First Dose and Dose level> 0 &prop1 
&prop2/cl e; 
Estimate 'slope difference (150mg bid – placebo)' <Interaction between 
Days from First Dose and Dose level> -1 1/cl e; 
Estimate 'slope difference (450mg bid – placebo)' <Interaction between 
Days from First Dose and Dose level> -1 0 1/cl e; 
Estimate 'slope difference (150 and 450 pooled – placebo)' <Interaction 
between Days from First Dose and Dose level> -1 &prop1 &prop2/cl e; 
 
ods output Estimates = est solutionF=sf;  
run; 
 
Note: Covariate <Ambulatory Status> will be removed for timed up and go and 6-
minute walk. 
 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 39 
4. The SAS code to produce of the slope of the three active dose levels and the difference 
between the three active dose levels and placebo by ambulatory status: 
PROC MIXED data=work METHOD=REML; by <Ambulatory Status> 
class <Patient> <Dose level>; 
model <Change from Baseline of PD Parameter> = <Days from First Dose> 
<Dose level> <Interaction between Days from First Dose and Dose level> 
<Baseline Value of PD Parameter>/ddfm=kenwardroger noint;  
 
random <Days from First Dose>/subject=<Patient> type=un;  
Estimate 'slope for placebo' <Days from First Dose> 1 <Interaction 
between Days from First Dose and Dose level> 1 /cl e; 
Estimate 'slope for 150mg bid' <Days from First Dose> 1 <Interaction 
between Days from First Dose and Dose level> 0 1 /cl e; 
Estimate 'slope for 450mg bid' <Days from First Dose> 1 <Interaction 
between Days from First Dose and Dose level> 0 0 1/cl e; 
Estimate 'slope for 150 and 450 pooled' <Days from First Dose> 1 
<Interaction between Days from First Dose and Dose level> 0 &prop1 
&prop2/cl e; 
Estimate 'slope difference (150mg bid – placebo)' <Interaction between 
Days from First Dose and Dose level> -1 1/cl e; 
Estimate 'slope difference (450mg bid – placebo)' <Interaction between 
Days from First Dose and Dose level> -1 0 1/cl e; 
Estimate 'slope difference (150 and 450 pooled – placebo)' <Interaction 
between Days from First Dose and Dose level> -1 &prop1 &prop2/cl e; 
 
ods output Estimates = est solutionF=sf;  
run; 
 
Note: By <Ambulatory Status> analysis will not be performed for timed up and go 
and 6-minute walk. 
 
5. The SAS code to produce the estimates of concentration: 
For continuous PD parameters: 
PROC MIXED data=work METHOD=REML; 
class <Patient> <Visit> <Ambulatory Status>; 
model <PD Parameter> = <Visit> <Concentration> <Interaction between Visit 
and Concentration> <Ambulatory Status> <Baseline Value of PD Parameter>/               
ddfm=kenwardroger;  
repeated <visit>/subject=<Patient type=un; 
ods output solutionF=sf;  
run; 
 
Note: Covariate <Ambulatory Status> will be removed for timed up and go and 6-
minute walk. 
 
 
6. The SAS code to produce the estimates of concentration bin: 
For continuous PD parameters: 
PROC MIXED data=work; 
class <Patient> <Visit> <Ambulatory Status> <Concentration bin>; 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 40 
model <PD Parameter> = <Visit> <Concentration bin> <Interaction between 
Visit and Concentration bin> <Ambulatory Status> <Baseline Value of PD 
Parameter>/ddfm=kenwardroger;  
repeated <visit>/subject=<Patient type=un; 
lsmeans <Interaction between Visit and Concentration bin>/diff cl; 
ods output lsmeans=lsm diffs=diff;  
run; 
 
Note: Covariate <Ambulatory Status> will be removed for timed up and go and 6-
minute walk. 
 
 
 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 41 
13. 
REFERENCES 
1. 
Swoboda, K.J., et al., SMA CARNI-VAL trial part I: double-blind, randomized, placebo-
controlled trial of L-carnitine and valproic acid in spinal muscular atrophy. PLoS One, 
2010. 5(8): p. e12140. 
 
 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 42 
APPENDIX A. ANALYSIS VISIT WINDOWS  
 
Analysis Visit Windows for Pulmonary Function Tests, Muscle Strength, Hammersmith 
Functional Motor Scale-Expanded (HFMS-E), Revised Upper Limb Module (RULM), 
Vital Signs and BDI Fast Screen 
Visit 
Scheduled Day 
Lower Bound 
Upper Bound 
Screening 
<1 
<1 
<1 
Day 1 
1 
1 
1 
Week 1 
8 
2 
11 
Week 2 
15 
12 
21 
Week 4 
29 
22 
42 
Week 8 
57 
43 
70 
Follow-Up 
85 
71 
Above 71 
 
 
Analysis Visit Windows for Timed Up and Go Test and 6-Minute Walk Test  
Visit 
Scheduled Day 
Lower Bound 
Upper Bound 
Screening 
<1 
<1 
<1 
Day 1 
1 
1 
1 
Week 4 
29 
2 
42 
Week 8 
57 
43 
70 
Follow-Up 
85 
71 
Above 71 
 
 
Analysis Visit Windows for Global Assessments  
Visit 
Scheduled Day 
Lower Bound 
Upper Bound 
Week 2 
15 
12 
21 
Week 8 
57 
43 
70 
Follow-Up 
85 
71 
Above 71 
 
 
Analysis Visit Windows for SMA-HI 
Visit 
Scheduled Day 
Lower Bound 
Upper Bound 
Day 1 
1 
1 
1 
Week 8 
57 
43 
70 
 
 
 
 


Cytokinetics, Inc. 
 
Statistical Analysis Plan – Protocol CY 5021                                                         08 May 2018 
 
CONFIDENTIAL                                                                                                                 Page 43 
Analysis Visit Windows for Clinical Safety Labs and 12-lead ECG  
Visit 
Scheduled Day 
Lower Bound 
Upper Bound 
Screening 
<1 
<1 
<1 
Day 1 
1 
1 
1 
Week 2 
15 
2 
35 
Week 8 
57 
36 
70 
Follow-Up 
85 
71 
Above 71 
 
 
Analysis Visit Windows for Pharmacokinetics  
Visit 
Scheduled Day 
Lower Bound 
Upper Bound 
Day 1 
1 
1 
1 
Week 1 
8 
2 
11 
Week 2 
15 
12 
21 
Week 4 
29 
22 
42 
Week 8 
57 
43 
70