A Randomized, Double-Blind, Placebo-Controlled, Study of Efficacy and Safety of Pirfenidone in Patients With Fibrotic Hypersensitivity Pneumonitis
Phase: PHASE2
Conditions: Interstitial Lung Disease
Sponsor: Evans Fernandez Perez

 
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INVESTIGATOR INITIATED STUDY (ML29875) 
ClinicalTrials.gov: NCT02958917 
 
PROTOCOL TITLE:  
A Randomized, Double-Blind, Placebo-Controlled, Study of the Efficacy and Safety of 
Pirfenidone in Patients with Fibrotic Hypersensitivity Pneumonitis  
 
PRINCIPAL INVESTIGATOR:  
  
Evans Fernández Pérez, MD, MS 
Division of Pulmonary, Critical Care and Sleep Medicine 
National Jewish Health; 1400 Jackson Street 
Southside Bldg., G12; Denver, CO 80206 
Email: fernandezevans@njhealth.org 
 
SITE:  National Jewish Health, 1400 Jackson St., Denver, CO 80206 
 
SPONSOR: Genentech, Inc 1 DNA way.  South San Francisco, CA 94080 
 
  
STUDY COORDINATOR: Kaitlin Fier, MPH 
ADJUDICATION COMMITTEE: Zulma Yunt MD; Rebecca Keith, MD; Josh Solomon, MD; 
Amy Olson, MD; Jeffrey Swigris, DO, MS; Michael Mohning, MD  
 
SAFETY OFFICER:  Tristan Huie, MD 
RADIOLOGIST: David Lynch, MD 
PATHOLOGIST: Steve Groshong, MD 
STATISTICIAN: James Crooks, PhD 
                               
 
     
 
 

 
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Table of Contents 
BACKGROUND INFORMATION........................................................................................... 3 
INVESTIGATIONAL PLAN ................................................................................................... 5 
INCLUSION CRITERIA ......................................................................................................... 6 
EXCLUSION CRITERIA ........................................................................................................ 8 
RANDOMIZATION AND BLINDING ....................................................................................10 
STUDY ENDPOINTS ..........................................................................................................11 
STUDY ASSESSMENTS.......................................................................................................13 
STATISTICAL METHODS ....................................................................................................22 
SAFETY REPORTING OF ADVSERSE EVENTS .......................................................................25 
REFERENCES ....................................................................................................................39 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 

 
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BACKGROUND INFORMATION 
 
Hypersensitivity pneumonitis (HP) is an immunologically mediated form of interstitial lung 
disease (ILD), in response to inhalation exposure to a large variety of antigens, of varying 
intensity, clinical presentation and natural history.1  
In the USA, the one-year prevalence rates for HP range from 1.39 to 2.06 cases per 100,000 
persons and incidence rates range from 0.82 to 1.74 cases per 100,000.  The prevalence and 
incidence of HP increased with age. Among adults aged 65 and over, prevalence rates range 
from 3.63-6.57 cases per 100,000 persons and incidence rates range from 2.41-5.18 cases 
per 100,000.2  
A subgroup of patients with HP develops fibrotic HP (FHP), characterized clinically by 
ventilatory restriction and the presence of chest imaging or pathologic evidence of lung 
fibrosis.3 FHP is an irreversible and often progressive disease that distorts the lung 
architecture and ultimately results in hypoxemia and respiratory failure.  The presence of 
lung fibrosis on HRCT scans and/or in surgical lung biopsy specimens is the strongest 
predictor of death.4-8 When fibrosis is present, the median survival time may be similar to 
those with IPF (4.9 years; 95% CI, 2.9-7.5).4 Indeed, FHP shares similarities with the most 
devastating of the ILD, namely IPF.  FHP can lead to end-stage pulmonary fibrosis with 
excessive collagen and extracellular matrix deposition.3,9,10 Also, IPF and FHP are known to 
have overlapping clinical manifestations, contributing risk factors (e.g., cigarette smoking, 
aging)11 and comorbidities (e.g., pulmonary hypertension),11,12 histopathologic features8,13 
and prognosis.11,14 Patients with FHP most commonly present with the insidious onset of 
progressive exertional dyspnea and a non-productive chronic cough.  While patients may 
encounter periods of clinical, radiologic and functional stability, or slow and gradual 
progression over many years, others may experience an accelerated decline over months. At 
any time during the disease course patients may experience acute respiratory exacerbations. 
These events are unpredictable and sometimes fatal.15 
Management of FHP is aimed at antigen identification and avoidance. Antigen avoidance can 
favorably influence FHP survival. Nevertheless, we have shown that even after adjusting for 
the presence of fibrosis, patient age, pulmonary function and smoking history, survival was 
shorter for patients with an unidentified inciting antigen (IA) exposure than those with an 
identified IA exposure (median, 4.88 years vs. 8.75 years),4 suggesting that pre-existing 
genetic susceptibility increases the risk of disease progression regardless of the presence or 
absence of IA.16  Immunomodulatory therapy, such as corticosteroids and azathioprine is 
commonly initiated when clinically significant disease progression is recognized.  However, it 
is increasingly clear that traditional immunomodulary therapy (e.g., corticosteroids) does not 
target key active profibrotic pathways in susceptible FHP patients and that a subset of 
patients develops a progressive disease phenotype.  Results from previous clinical trials 
suggest that pirfenidone is well tolerated and may slow the decline in or lead to stabilization 
of pulmonary function in patients with IPF.   IPF is a fibrotic lung disease that shares 
overlapping pathways with FHP.  Given the efficacy and safety in previous IPF trials,17-20 

 
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treatment with pirfenidone may be of value in FHP and should be tested for its clinical 
efficacy in a well-characterized disease.  In an open-label study of 10 patients with 
pulmonary fibrosis, pirfenidone was well tolerated and no significant adverse effects 
occurred during one-year treatment when in combination with corticosteroids or 
azathioprine.21 
The main goal of the current study is to evaluate the clinical effect of pirfenidone on disease 
progression and assess the safety and tolerability, in particular when in combination with 
immunomodulary drugs, among subjects with different severities of FHP. 
 
Description  
Pirfenidone is a small non-peptide molecule of low molecular weight (185.2 daltons). Its 
chemical name is 5-methyl-1-phenyl-2-(1H)-pyridone, and its empirical formula is 
C12H11NO.  It is an antifibrotic agent with anti-inflammatory properties.  Pirfenidone was 
approved by European and US regulatory agencies in 2011 and 2014, respectively, for the 
treatment of IPF. 
 
Potential Benefits and Risks to Human Subjects 
The safety of pirfenidone has been characterized in 15 studies involving 1345 subjects and 
patients; 770 patients have received pirfenidone at a dose of 2403 mg/d or greater. Analyses 
of this data suggest that the side effects of pirfenidone are readily monitored, typically 
reversible, and related to tolerability rather than morbidity.  
In the LOTUSS study (An Open Label, Randomized, Phase 2 Study of the Safety and 
Tolerability of Pirfenidone when Administered to Patients with Systemic Sclerosis-Related 
Interstitial Lung Disease) designed to assess the safety and tolerability of pirfenidone in 
patients with SSc-ILD at the same therapeutic dose used in IPF, and using 2 dose-titration 
schedules (4-weeks vs. 2-weeks), with or without stable background systemic sclerosis-ILD 
therapy; mycophenolate (commonly utilized in HP) was received by 63% of patients in 
addition to pirfenidone, with similar tolerability to pirfenidone alone. Further, patients who 
took pirfenidone and mycophenolate, compared with pirfenidone alone, appeared to 
experience fewer treatment emergent adverse events and discontinuations.  A longer dose 
titration, 4-weeks as opposed to 2-weeks, had more favorable effect on tolerability.22  
Escalation of dose over the first 4 weeks, dosing with food, use of protection against sun 
exposure, prompt symptomatic management of intolerance, and monitoring of liver function 
tests during dosing are recommended to maximize tolerability. 
 
Study Rationale 
FHP is a life-threatening and severely debilitating disease. Currently, there is lack of 
efficacious therapeutic options. Results from four controlled trials,17-20suggest that 
pirfenidone treatment is safe and well tolerated and results in clinically meaningful benefits 
in a variety of domains, exercise tolerance (change in 6MWT distance), and progression-free 
survival time in patients with IPF. Given the primacy of loss of lung volumes over time in 

 
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patients with FHP, this protocol is intended to confirm that pirfenidone 2403 mg/d reduces 
decline in %FVC over 52 weeks and that it is safe and tolerable, as observed in the previous 
IPF studies. 
 
INVESTIGATIONAL PLAN 
 
Objective 
• To evaluate the treatment effect of pirfenidone 2403 mg/d compared with placebo on the 
mean change of percent predicted forced vital capacity (%FVC) in subjects with fibrotic 
hypersensitivity pneumonitis (FHP). 
• To assess the safety and tolerability of pirfenidone at 2403 mg/d when administered to 
subjects with FHP. 
 
Study design 
This is a single-center, randomized, double-blind, placebo-controlled, efficacy and safety 
study of pirfenidone in subjects with FHP. Approximately 42 subjects will be randomized in a 
2:1 ratio to receive pirfenidone 2403 mg/d or placebo for 52 weeks. The primary efficacy 
endpoint is the mean change in %FVC from Baseline to Week 52, to be analyzed using a rank 
linear model. Subjects will receive blinded study treatment from the time of randomization 
until the Week 52 Visit. 
Eligible subjects, males and females, aged 18–80 years (inclusive) must have a confident or 
high-confidence diagnosis of FHP according to pre-specified criteria without evidence of an 
alternative diagnosis that may contribute to their interstitial lung disease. Subjects will be 
required to have a FVC ≥40% and DLCO ≥30% at screening. 
Subjects will enter the Screening Period, which may last up to 30 days. In addition of brief 
periods of corticosteroid use for acute FHP exacerbation, subjects will be allowed to receive 
any other therapy for the treatment of FHP as per pre-specified criteria.  
The dose of study treatment will be titrated over 4 weeks (2 weeks at 1 capsule TID; 2 weeks 
at 2 capsules TID; and 48 weeks at 3 capsules TID (2403 mg/d). Pirfenidone dose modifications 
or interruption will be allowed for safety or tolerability reasons at any time during the study.  
Subjects will have a telephone assessment at Week 1 and 3, and an in-clinic assessment at 
day 1, weeks 5, 13, 26, 39, and 52. Subjects will be asked to complete an adverse event (AE) 
and dosing compliance diary between all visits. If subjects discontinue study treatment early 
for any reason, they will be asked to continue with all scheduled study procedures through 
Week 52. 
A Safety officer will review all deaths and monitor subject safety during the study.   
 
Dose Rationale 
Pirfenidone 2403 mg/d was the dose evaluated in the CAPACITY-004, CAPACTIY-006, and 
ASCEND trials, which demonstrated favorable efficacy, and safety results compared with 
placebo. 

 
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Selection of Study Population 
The study population consists of male and female FHP patients aged 18 to 80 years 
(inclusive) who meet the inclusion and exclusion criteria outlined below. 
 
INCLUSION CRITERIA 
Patients must fulfill all of the following criteria to be eligible for enrollment in the study: 
 
Multidisciplinary Consensus Diagnosis of FHP* 
a. Diagnosis of FHP (figure), defined from the first instance in which a patient was 
informed of having FHP for at least 3 to 6 months. 
b. Age 18 through 80 years at randomization. 
c. Diagnosis of typical or compatible FHP by HRCT according to pre-specified criteria 
(Note: HRCT scan performed within 4 months of the start of screening may be use if it 
meets image acquisition guidelines): 
a. Typical FHP: Evidence of lung fibrosis (reticular abnormality and/or, traction 
bronchiectasis and/or, architectural distortion, and/or honeycombing) with 
either of the following: 
i. Profuse poorly defined centrilobular nodules of ground-glass opacity 
affecting all lung zones.  
ii. Inspiratory mosaic attenuation with three-density sign. 
AND  
iii. Lack of features suggesting an alternative diagnosis.   
 
These patients are required to have an identifiable antigen exposure, or an 
indeterminate or unidentifiable antigen exposure and BAL lymphocytosis (20%) 
or transbronchial biopsies demonstrating non-necrotizing granuloma(s) or 
lymphocytosis, or surgical lung histology consistent with HP.  
 
b. Compatible FHP: Evidence of lung fibrosis (as above) with any of the following: 
i. 
Patchy or diffuse ground-glass opacity. 
ii. 
Patchy, non-profuse centrilobular nodules of ground-glass attenuation 
iii. 
Mosaic attenuation and lobular air-trapping that do not meet criteria 
for typical fibrotic HP. 
AND 
iv. 
Lack of features suggesting an alternative diagnosis.   
 
These patients are required to have an identifiable or indeterminate antigen 
exposure and BAL lymphocytosis (20%) or transbronchial biopsies 
demonstrating non-necrotizing granuloma(s) or lymphocytosis, or surgical lung 
histology consistent with HP. Otherwise, surgical lung histology consistent with 
HP. 

 
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c.   Indeterminate FHP: CT signs of fibrosis without other features suggestive of  
      HP and lack of features suggesting an alternative diagnosis. These patients     
      are required to have a known antigen exposure and BAL lymphocytosis  
      (20%) or transbronchial biopsies demonstrating non-necrotizing  
      granuloma(s) or lymphocytosis, or surgical lung histology consistent with HP.  
 
FHP Disease Severity and Progression 
4. FVC ≥40%, DLCO ≥30% based either on historical pulmonary function tests obtained 
within the 60 days prior to Day 1 
5. In the investigator’s opinion, evidence of disease progression: worsening respiratory 
symptoms and an increased in extent of fibrosis on HRCT or relative decline in the 
FVC% of at least 5% over 24 months. 
6. Able to walk ≥100 m during the 6-minute walk test (6MWT) at Screening. 
 
Informed Consent and Protocol Adherence 
7. Able to understand and sign a written informed consent form. 
8. Able to understand the importance of adherence to study treatment and the study 
protocol and willing to follow all study requirements, including the concomitant 
medication restrictions, throughout the study 
 
Eligibility criteria summary (multidisciplinary discussion): 
 
  
 
*HP Diagnosis - Multidisciplinary Adjudication Committee: the multidisciplinary 
discussion will be performed at the weekly NJH ILD conference attended by seven 
pulmonologists, one radiologist, and one pathologist.  During the conference, the 
Inciting Antigen Exposure 
Unidentified
Indeterminate
Identified
HRCT Confidence 
Typical
Compatible or Indeterminate
HRCT Confidence 
Indeterminate
Typical or compatible
HRCT Confidence 
Typical
Compatible or Indeterminate
Bronchoalveolar fluid Lymphocytosis / typical transbronchial biopsy findings 
Eligible*
Provisional 
High-confidence
Provisional 
Low-confidence
HP unlikely
SLB HP histology 
pattern
MDD
MDD
MDD
MDD
MDD
Eligible*
MDD
18-80 years-old + FVC ≥40% + DLCO ≥30% + No known alternative cause

 
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exposure history (identified, indeterminate [evidence is suggestive of an association], or 
unidentified inciting antigen exposure), clinical details and radiologic and pathologic 
images will be presented. The expert chest radiologist and the expert pathologist will 
interpret the radiological and histological features. The final multidisciplinary diagnosis 
adjudication will be documented on a case report form. Differences of opinion regarding 
diagnostic eligibility will be resolved through consensus adjudication. 
Patients with a provisional low-confidence diagnosis or HP unlikely may require surgical 
lung biopsy HP histology data for inclusion as determined by the adjudication 
committee. 
 
EXCLUSION CRITERIA 
Patients with any of the following will be excluded from the study: 
 
Disease-Related Exclusions 
1. Not a suitable candidate for enrollment or unlikely to comply with the requirements 
of this study, in the opinion of the investigator 
2. Cigarette smoking at Screening or unwilling to avoid tobacco products throughout the 
study 
3. Known explanation for the interstitial lung disease, including but not limited to 
radiation, drug toxicity, sarcoidosis, pneumoconiosis. 
4. Clinical diagnosis of any connective tissue disease, including but not limited to 
scleroderma, polymyositis/dermatomyositis, and rheumatoid arthritis. 
5. Expected to receive a lung transplant within 6 to 12 months from randomization or on 
a lung transplant waiting list at randomization. 
6. The investigator judges that there has been sustained improvement in the severity of 
FHP during the 6-12 months prior to Screening Visit 1, based on changes in %FVC, 
%DLCO, and/or HRCT scans of the chest. 
 
Medical Exclusions 
7. Any condition other than FHP that, in the opinion of the investigator, is likely to result 
in the death of the patient within 6 to12 months. 
8. Any condition that, in the opinion of the investigator, might be significantly 
exacerbated by the known side effects associated with the administration of 
pirfenidone. 
9. Pregnancy or lactation. Women of childbearing capacity are required to have a 
negative serum pregnancy test before treatment and must agree to maintain highly 
effective contraception by practicing abstinence or by using at least two methods of 
birth control from the date of consent through the end of the study. If abstinence is 
not practiced, one of the two methods of birth control should be an oral contraceptive 
(e.g., oral contraceptive and a spermicide). 
10. History of ongoing alcohol or substance abuse. 

 
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11. History of severe hepatic impairment or end-stage liver disease. 
12. History of end-stage renal disease requiring dialysis. 
13. Clinical evidence of active infection including, but not limited to, bronchitis, 
pneumonia, sinusisits, or urinary tract infection. 
14. Unstable or deteriorating cardiac disease, including but not limited to the following: 
a. Unstable angina pectoris or myocardial infarction. 
b. Congestive heart failure requiring hospitalization. 
c. Uncontrolled clinically significant arrhythmias. 
 
Laboratory Exclusions 
15. Any of the following liver function test criteria above specified limits: total bilirubin > 
2.0 mg/dL, excluding patients with Gilbert’s syndrome; aspartate or alanine 
aminotransferase (AST/SGOT or ALT/SGPT) >3 ULN; alkaline phosphatase >2.5 ULN 
within past 30 days. 
16. Creatinine clearance (CrCl) <30 mL/min, calculated using the Cockcroft-Gault formula 
within past 30 days. 
17. Electrocardiogram (ECG) with a QTc interval >500 msec at Screening. 
 
Medication Exclusions 
18. Prior use of pirfenidone, nintadinib or known hypersensitivity to any of the 
components of study treatment.  
19. Introduction, increase or escalation of immunosuppressive pharmacological therapy 
within 1 month (e.g. prednisone, azathioprine, mycophenolic acid and 
mycophenolate mofetil). 
20. Use of any of the following therapies within 28 days before Screening: 
a. Bosentan, ambrisentan, cyclophosphamide, cyclosporine, etanercept, iloprost, 
infliximab, methotrexate, tacrolimus, tetrathiomolybdate, TNF-α inhibitors, imatinib 
mesylate, Interferon gamma-1b, and tyrosine kinase inhibitors. 
b. Fluvoxamine. 
c. Sildenafil (daily use). Note: intermittent use for erectile dysfunction is allowed. 
 
Treatments 
Study treatment is defined as either pirfenidone 2403 mg/d or placebo equivalent 
administered in divided doses three times per day (TID) with food. Study treatment will be 
titrated over 4 weeks to the full maintenance dose of 9 capsules per day (three 267-mg 
capsules taken orally TID with food). Subjects will remain on a stable maintenance dose for 
the duration of the treatment period unless the dose is reduced to manage an AE or titrated 
again when restarting study treatment after a 28-day or greater lapse in treatment. 
 
Missed Doses 
If subjects miss a scheduled dose, that dose should be skipped. Regular dosing should 

 
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resume with the next scheduled dose. Subjects should not take any extra doses to make up 
for missed doses. 
 
Study Treatment Supply 
Genentech will supply all study treatment. Pirfenidone 267-mg and placebo will be supplied 
in opaque, hard, white gelatin capsules that are visually indistinguishable. 
 
RANDOMIZATION AND BLINDING 
 
This is a randomized, double-blind, placebo-controlled study. Neither study personnel nor 
the subjects will know which study treatment the subject is receiving. Subjects will be 
randomized in a 2:1 ratio to receive either pirfenidone 2403 mg/d or a placebo equivalent. 
The placebo will be visually similar to pirfenidone.  The National Jewish Health statistician 
will hold the randomization schedule and the clinical research unit will keep the unidentified 
placebo or drug bottles for each patient prepared by Genentech.  On the Day 1 visit, each 
subject will receive his or her first bottle of assigned unidentified drug.   
 
Unblinding 
Individual subject treatment assignments will not be unblinded during the study unless a 
subject safety issue arises in which unblinding is necessary to ensure optimal subject 
management.  Once the study is complete, and the final analysis completed, treatment 
assignments will be unblinded for all subjects. 
 
Study Treatment Accountability 
The monitoring of the inventory of study treatment supplies will be delegated to the 
National Jewish Health clinical research unit. Study treatment may not be used for any 
purpose other than that described in the protocol. All study treatment will be stored in a 
secure drug storage room with access restricted to authorized personnel.  Subjects will be 
asked to return all used and unused bottles of study treatment at every visit.  All bottles of 
study treatment will be recorded in a Drug Accountability Log. The study coordinator at the 
National Jewish Health clinical research unit will account for all study treatment received, 
dispensed to the subjects, returned by the subjects, not used, and sent for destruction. All 
documentation of study treatment shipments will be retained at the National Jewish Health 
Clinical Research Unit. 
 
Dispensing of Study Treatment 
Study treatment will be dispensed to the subjects every 13 weeks, but may be dispensed at 
other visits, as needed. Subjects will be instructed to store study treatment at room 
temperature.  Subjects will be instructed to use study treatments in the order in which they 
are dispensed and that they must return all used and unused study treatment bottles at 
every visit.  Study drug returned at week 5 will be counted for compliance and returned to 

 
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the subject at those visits. 
 
Concomitant Medications 
All of the following are considered concomitant medications, and data regarding their use 
will be collected and recorded: 
1. Prescription drugs 
2. Over-the-counter drugs, including vitamins, antacids, herbal and dietary supplements 
3. Permitted FHP therapies: prednisone, azathioprine, mycophenolic acid and 
mycophenolate mofetil 
4. Excluded therapies (see exclusion criteria) 
 
Early Discontinuation of Study Treatment 
Study treatment will be discontinued for any of the following reasons: 
1. Unacceptable toxicity (this may include serious adverse events [SAEs] related to   
2. study treatment) 
3. Patient request or withdrawal of consent 
4. Pregnancy 
5. Investigator discretion 
6. Lung transplantation 
 
Subjects who discontinue study treatment will be asked to complete all scheduled study 
assessments and procedures through Week 52. 
 
STUDY ENDPOINTS 
 
Primary Efficacy Outcome Variables: 
Mean change in %FVC at week 52. 
 
Key Secondary Efficacy Outcome Variables 
1. Progression-free survival (PFS) defined as the time from study treatment 
randomization to the first occurrence of any of the following events: 
a. Relative decline from baseline in 10% in FVC and/or DLCO 
b. Acute exacerbation of FHP defined as acute respiratory declined leading to 
hospitalization or ER or Urgent care evaluation; or evidence of all of the following 
criteria within a 4-week period in the outpatient setting: 
i. Increase from baseline FIO2 ≥1 L O2. 
ii. Clinically significant worsening of dyspnea and/or cough. 
iii. New, superimposed ground-glass opacities or consolidation or new 
alveolar opacities on chest x-ray or CT. 
iv. Primary: if all other causes excluded (e.g., acute gastro-esophageal 
aspiration, pneumothorax, infection, left heart failure, pulmonary 

 
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embolism, or identifiable cause of acute lung injury). 
c. A decrease from baseline of at least 50 meters in 6-minute walk distance. 
d. Change in background therapy (need for a new course of PO or IV steroids or for 
the patient receiving maintenance prednisone, as a need to increase the dose by 
10 mg or more; and/or addition of cyclophosphamide, azathioprine, 
mycophenolate mofetil or mycophenolic acid). 
e. Death 
 
2. Slope of FVC over 52-week treatment period. 
3. Mean change in %DLCO at week 52 
4. Proportion of patients with all-cause mortality.  
5. Proportion of patients with all-cause hospitalization.  
6. Proportion of patients with hospitalization for respiratory cause. 
7. Proportion of patients with respiratory exacerbations requiring hospitalizations. 
8. Proportion of patients with evidence of progression in fibrosis on visual comparison of 
baseline and week 52 HRCT scans. 
 
Exploratory Outcome Variables: 
1. Mean change from baseline in health−related quality of life, measured by St. George’s 
Respiratory Questionnaire (SGRQ) (3 domain scores and total score), at Week 52. 
2. Mean change from baseline in health−related quality of life, measured by A Tool to 
Assess Quality of Life Questionnaire (L-IPF) at Week 52. 
3. Mean change from Baseline to Week 52 in dyspnea as measured by the University of 
California at San Diego Shortness-of-Breath Questionnaire (UCSD SOBQ) score. 
4. Proportion of patients with evidence of progression, stability or improvement in fibrosis 
on texture-based quantitative analysis of CT.  
5. Candidate biomarker expression in the peripheral blood of patients with HP over the 52-
study follow-up period. 
 
Safety Outcome Measures: 
1. Proportion of patients with treatment-emergent adverse events (AEs) 
2. Proportion of patients with treatment-emergent serious adverse events (SAEs) 
3. Proportion of patients with treatment-emergent adverse drug reaction (ADRs) 
4. Proportion of patients with treatment-emergent serious drug reaction (SDRs) 
5. Proportion of patients with AEs leading to early discontinuation of study treatment 
6. Proportion of patients with treatment-emergent deaths 
7. Proportion of patients with treatment-emergent changes in clinical laboratory findings, 
vital signs and ECGs. 
 
 
 

 
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STUDY ASSESSMENTS  
 
Patients will be screened for study inclusion over a period of up to 4 weeks.  If eligible, 
subjects will receive study drug starting on Day 1 (clinic visit).  Subjects will have a telephone 
assessment at Week 1 and 3 and in-clinic assessments on week 5, 13, 26, 39, and 52. Study 
assessments will include laboratory tests, spirometry, DLCO, 6MWT and Borg Scale, ECG, 
HRCT scan, patient reported outcome questionnaires, vital signs, height, weight, oxygen 
saturation and fraction of inspired oxygen (FiO2), directed history, physical examination and 
any changes to existing treatment regimens. Subjects will complete an AE and dosing 
compliance diary between all visits. Subjects who undergo lung transplantation or who chose 
to withdraw from study procedures early will be followed for vital status until Week 52. 
 
Routine Clinical Laboratory Tests 
The following assessments will be performed at the National Jewish Health Advanced 
Diagnostic Laboratories: 
1. Hematology (complete blood count with platelet count and automated differential) 
2. Serum chemistry profile 
3. Pregnancy test for women of childbearing capacity 
 
Biomarkers in blood 
The study will include a significant exploratory component focused on identification of 
biomarkers that may be prognostic for patients likely to have an accelerated rate of disease 
progression or diagnostic for identifying patients likely to benefit from treatment.  Certain 
biomarkers may be differentially expressed in FHP and may change as a result of pirfenidone 
treatment.  The blood samples that will be obtained for this study may help identify these 
biomarkers.  Serum and plasma samples will be collected at baseline and at week 52 to 
assess the relationship between FHP related biomarkers (identified by RNA-seq and ChIP-
seq), disease progression, clinical status, and treatment benefit. We hypothesize that distinct 
peripheral blood mononuclear cells gene expression profiles have the potential to be an 
adjunct to the traditional clinical-radiologic-pathologic assessment, in providing disease-
specific prognostic information and help identify novel pathways for targeted therapy. 
 
HRCT Scans 
HRCT scans obtained within 4 months before the Screening period as part of the standard of 
care for a patient may be used to confirm eligibility, provided they meet all of the image 
acquisition and quality criteria required by the CT expert readers.  All HRCT digital images are 
to be stored on a dedicated disk. The images will be anonymized using a tool developed by 
the Quantitative Imaging Laboratory at National Jewish Health. The Quantitative Imaging 
Laboratory will be tasked with interpretation, archiving, and quantitative analysis of the 
images. One thoracic radiologist with expertise in FHP will review the HRCT scans using an 
electronic score sheet. Data regarding the HRCT interpretation will be entered electronically 

 
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into the trial research’s database and incorporated into the clinical database.  Evidence of 
progression, stability, or improvement in fibrosis on temporally blinded visual comparison of 
baseline and week 52 HRCT scans will be documented on a five-point scale (much better, 
better, same, worse, and much worse). 
 
Pathology 
For patients with surgical lung biopsies or bronchoscopic biopsies, a score sheet will be used 
to assess whether or not the biopsy is consistent with a diagnosis of hypersensitivity 
pneumonia and to record the associated histologic findings.  One thoracic pathologists will 
score each biopsy.  If a patient will be excluded from the study based on the pathology 
assessment by a single reader, a second reader will be used to resolve the discrepancy.  The 
microscopic features section of the score sheet will be recorded for each read and since they 
represent semi-quantitative data, the mean will be used as the overall result for later 
analysis.  The microscopic section of the score sheet will not be used to determine subject 
inclusion/exclusion. 
 
Score sheet: 
Biopsy type: Bronchoscopic, Wedge 
Diagnosis: 
Is the biopsy consistent with a pathologic diagnosis of hypersensitivity pneumonia:  
If the biopsy is inconsistent, what is your overall diagnosis? 
Microscopic findings: 
Please assess the extent of each of the following on a scale 0-3 (0 = none, 1 = mild/rare, 2 = 
moderate, 3 = severe/extensive) 
Airway-centered chronic inflammation: 
Nonnecrotizing granulomas: 
Multinucleated giant cells: 
Peribronchiolar metaplasia: 
Organizing pneumonia: 
Fibrosis: 
Microscopic honeycombing: 
 
Spirometry and DLCO Measurements 
All equipment, procedures, and personnel qualifications for the assessment of lung function 
are based on the recommendations of the American Thoracic Society: 
1. Spirometry measurements will include FVC and FEV1  
2. DLCO will be measured by determining the diffusing/transfer capacity of the lung for 
carbon monoxide.  
 
Data for FVC, DLCO will be entered electronically blindly into the research’s database and 
incorporated into the research electronic data capture (REDCap). 

 
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6-Minute Walk Test (6MWT) and Borg Scale 
The 6MWT measures the distance that a patient can walk at his/her own pace on a 
measured, flat hard surface in a period of 6 min. The 6MWT assesses the global and 
integrated responses of all body systems involved during walking.  The 6MWT will be 
performed based on ERS/ATS recommendations.  The Borg Scale is an instrument to be self-
administered by the patient as part of the 6MWT procedure.   
 
St George’s Respiratory Questionnaire (SGRQ) 
The SGRQ is patient-self-administered questionnaire to measure and quantify health-related 
health status.  It has been shown to correlate well with established measures of symptom 
level, disease activity and disability. 
 
A Tool to Assess Quality of life in (L-IPF) 
The L-IPF is patient-self-administered questionnaire to measure and quantify health-related 
health status developed at National Jewish Health.   
 
UCSD Shortness of Breath Questionnaire  
The UCSD SOBQ is a symptom-specific, 24-item, patient-self-administered questionnaire that 
will be use to assess shortness of breath on the study subjects while doing a variety of 
activities of daily living.  
 
Physical Exam and Vital Signs 
A complete physical examination will be performed by a study physician and will include all 
body systems pertinent to the subject. If clinically significant abnormalities are observed 
before Day 1, they will be reported in the patient’s medical history. If clinically significant 
abnormalities are observed after Day 1, the investigator will decide if they are new adverse 
events. Vital signs for this study protocol include heart rate, blood pressure, oxygen 
saturation and FiO2. 
 
Electrocardiograms (ECGs)  
During the study, if the QTc interval is >550 msec. and verified by the study site or local 
cardiologist, study drug will be stopped. If the QTc interval is between 500 and 550 msec. 
and verified by a study site study treatment will be interrupted. ECG data will be 
incorporated into the clinical database. 
 
Directed History During the Study 
The following will be assessed as directed history: 
• Clinical and exposure history. 
• AEs/SAEs. 
• Concomitant medications. 

 
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• Dosing and compliance. 
• Supplemental oxygen use. 
• Hospitalizations. 
 
Vital Status Assessments 
Vital status will be assessed for those who are no longer able to participate in the study 
procedures (Early Withdrawal from Study Procedures) at protocol-specified time points 
(study visit dates) until the Follow-Up Visit. Subjects who undergo lung transplantation or 
who chose to withdraw from study procedures early will be followed for vital status until 
Week 52. This assessment will most likely be accomplished remotely (i.e., via telephone or 
electronically). These communications are well documented in the participants study file. 
Vital status procedures are as follows: 
1. If the subject is not available, an authorized family member or representative will be 
contacted by telephone or electronically at the milestones of study visit dates.      
2. In the case of lung transplant, the date of the transplant, details of the transplant, dates 
of hospitalization, and the current vital status will be obtained. 
3. In the case of a subject death, the date, details, and cause of death will be requested 
from the subject’s representative or family member. 
4. If a subject is lost to follow-up, vital status will be ascertained through the use of death 
registries. 
 
Mortality Assessment  
Mortality Assessment will be closely examined by Tristan Huie, MD including the details and 
the relationship to FHP for each death. Documentation regarding deaths must be requested 
and should include (but is not limited to) discharge summaries, death certificates, and 
autopsy reports. 
 
Washout and Screening Periods 
Written informed consent will be obtained before initiating any study-associated procedures 
or changes to a pre-existing treatment regimen for purposes of this study. Procedures 
conducted during Screening will be used to determine the eligibility of each patient for study 
inclusion before randomization and to establish subject Baseline status. If subjects fail 
Screening due to a condition that subsequently resolves (e.g., infection), they may be 
considered for rescreening. 
 
Washout Period (28 Days) 
Before entering a subject in the Washout Period, all relevant medical history, diagnostic 
findings, and measures of disease severity should be reviewed to evaluate the subject’s 
suitability for the study. Written informed consent must be obtained before withdrawing or 
tapering the subject off prohibited therapies. The study team must explain to the subject 
that entry into the study is not guaranteed.  Any subject identified for the study must 

 
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discontinue all prohibited medications at least 28 days before Screening. This is the Washout 
Period. If a medication must be tapered, tapering must start early enough that the subject 
has discontinued the drug 28 days before the start of Screening.  
 
Screening Period  
The Screening period is defined as the time between the date of the first Screening 
procedure and may last up to 30 days. Screening procedures may be conducted on different 
days within the Screening period if convenient. 
The following procedures will be performed during Screening: 
1. Written informed consent, if not already obtained during the Washout Period. 
2. Complete medical history, review of systems, and review of concomitant medications. 
3. Physical examination, vital signs, weight, and height. 
4. Clinical laboratory assessments, including hematology, serum chemistries, serologic 
tests clinically within the past 30 days, and pregnancy test for women of childbearing 
capacity. 
5. ECG.  
6. Resting Oxygen and FIO2. 
7. A 6MWT with Borg Scale pre and post. 
8. Transfer of all surgical lung biopsies, if available, for evaluation by pathologist. 
9. Review of transbronchial biopsy and/or BAL, if available, to assess eligibility 
10. HRCT within the past 4 months, spirometry and DLCO within the past 30 days to assess 
eligibility.  
 
Assessments during Treatment 
 
Eligibility and Randomization (Day 1) 
All Day 1 procedures must be performed before randomization and before administration of 
study treatment. This study has no Day 0. Randomization (Day 1) will occur no more than 30 
days after the start of the Screening period, and study treatment will begin on the day of 
randomization.   Once the patient is confirmed to be eligible for randomization, the patient 
will be randomized at the end of Day 1.   
The following procedures will be performed on Day 1: 
 
Before Randomization 
1. Directed history (including review of AEs/SAEs, concomitant medications, oxygen use, and 
hospitalizations). 
2. Physical examination, vital signs, FiO2 and weight. 
3. Clinical laboratory assessments, including hematology, serum chemistries, pregnancy test 
for women of childbearing capacity. 
4. Spirometry (FVC, FEV1) and DLCO. 
5. 6MWT with Borg Scale pre and post. 

 
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6. UCSD SOBQ, L-IPF and SGRQ. 
7. Confirmation of patient eligibility for study participation. 
8.  Genetic testing (RNA-seq and ChIP-seq). 
 
Randomization 
9. All unidentifiable randomization codes will be generated by a statistician independent of 
the trial conduct. All subjects, monitors, and study center personnel related to the study, 
including the site pharmacist will be blinded to study treatment throughout the study. The 
randomization schema will be securely maintained electronically at the NJH Clinical Research 
Unit. 
 
After Randomization 
10. Instruct the subject on how to titrate the dose of study treatment. 
11. Dispense 13-week supply of study treatment. Dosing should start on the day of 
randomization (see clinical IB section 3). 
12. Dispense subject diary and instruct on its use. 
 
Week 1 Telephone Assessment (± 2 days) 
A telephone interview will be conducted to determine vital status and to assess tolerability 
of study treatment, subject compliance with dosing, and titration of study treatment. 
 
Week 3 (± 2 days) 
The following will be performed at Week 3: 
1. On-site safety assessment. 
2. Clinical laboratory assessments including comprehensive metabolic panel. 
 
Week 5 (± 1 week) 
The following procedures will be performed at Week 5: 
1. Directed history (including review of AEs/SAEs, concomitant medications, oxygen use, 
hospitalizations, dosing, and diary). 
2. Physical examination, vital signs, FiO2 and weight. 
3. ECG. 
4. Clinical laboratory assessments, including hematology, serum chemistries, and pregnancy 
test for women of childbearing capacity. 
5. Vital Status Assessment. 
 
Week 13 (± 2 weeks) 
The following will be performed at Week 13: 
1. Directed history (including review of AEs/SAEs, concomitant medications, oxygen use,  
    hospitalizations, dosing, and diary). 
2. Physical examination, vital signs, FiO2 and weight. 

 
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3. ECG. 
4. Spirometry (FVC, FEV1). 
5. Clinical laboratory assessments, including hematology, serum chemistries, pregnancy test 
for women of childbearing capacity. 
6. 6MWT with Borg Scale pre and post. 
7. UCSD SOBQ, L-IPF and SGRQ. 
8. Collection of any unused study treatment, review compliance and dispensing of 13-week 
supply of study treatment. 
9. Dispense new diary, if required. 
10. Vital Status Assessment. 
 
Week 26 (± 2 weeks) 
The following will be performed at Week 26: 
1. Directed history (including review of AEs/SAEs, concomitant medications, oxygen use,  
hospitalizations, dosing, and diary). 
2. Physical examination, vital signs, FiO2 and weight 
3. ECG. 
4. Spirometry (FVC, FEV1)/DLCO. 
5. Clinical laboratory assessments, including hematology, serum chemistries, pregnancy test 
for women of childbearing capacity. 
6. 6MWT with Borg Scale pre and post. 
7. UCSD SOBQ, L-IPF and SGRQ. 
8. Collection of any unused study treatment, review compliance and dispensing of 13-week 
supply of study treatment. 
9. Dispense new diary, if required. 
10. Vital Status Assessment. 
 
Week 39 (± 2 weeks) 
The following will be performed at Week 39: 
1. Directed history (including review of AEs/SAEs, concomitant medications, oxygen use,  
    hospitalizations, dosing, and diary). 
2. Physical examination, vital signs, FiO2 and weight 
3. ECG. 
4. Spirometry (FVC, FEV1). 
5. Clinical laboratory assessments, including hematology, serum chemistries, pregnancy test 
for women of childbearing capacity. 
6. 6MWT with Borg Scale pre and post. 
7. UCSD SOBQ, L-IPF and SGRQ. 
8. Collection of any unused study treatment, review compliance and dispensing of 13-week 
supply of study treatment. 
9. Dispense new diary, if required. 

 
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10. Vital Status Assessment. 
 
Week 52 (± 1 week) 
Study treatment will stop for all subjects upon completion of all procedures for the Week 52 
Visit. Subjects must return all used and unused study treatment bottles from this study to 
the study center.  The following procedures will be performed at the Week 52 Visit: 
1. Directed medical history (including review of AEs/SAEs, concomitant medications, oxygen 
use, hospitalizations, dosing, and diary). 
2. Physical examination, vital signs, FiO2 and weight. 
3. ECG. 
4. Clinical laboratory assessments, including hematology, serum chemistries, and pregnancy 
test for women of childbearing capacity, and genetic testing. 
5. Spirometry (FVC, FEV1)/DLCO. 
6. 6MWT and Borg Scale pre and post. 
7. UCSD SOBQ, L-IPF and SGRQ. 
8. HRCT. 
9. Collection of all used and unused bottles of study treatment. 
10. Dispensing of a new diary, if required, for data collection during Follow Up. 
11. Vital Status Assessment. 
12.  Genetic testing (RNA-seq and ChIP-seq). 
 
Follow-up Visit (+ 7 days) 
Patients who discontinue study treatment early will be required to return for a Follow-up 
Visit 28 to 35 days after their last dose of study treatment in this study. The following 
procedures will be performed at the Follow-up Visit: 
 
1. Directed medical history (including review of AEs/SAEs, concomitant medications, oxygen 
use, hospitalizations, dosing, and diary). 
2. Physical examination, vital signs, and weight. 
3. Clinical laboratory assessments, including hematology, serum chemistries, pregnancy test 
for women of childbearing capacity. 
4. Collection of diary. 
5. Vital Status Assessment. 
 
Early Discontinuation of Study Treatment 
Subjects who discontinue study treatment before Week 52 will complete a Follow-up Visit. In 
addition to the procedures listed above for the Follow-up Visit, subjects who discontinue 
study treatment before Week 52 must return all used and unused study treatment. Subjects 
who discontinue study treatment will be asked to continue to complete all scheduled study 
assessments and procedures through Week 52. 
 

 
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Early Withdrawal from Study Procedures 
Subjects who withdraw from study procedures early for reasons other than withdrawal of 
consent will cease study procedures but should be reminded that they gave permission for 
Vital Status Assessments when they consented to participate in the study. Consent for Vital 
Status Assessments remains intact when a subject withdraws from study procedures. Such 
subjects will continue to complete Vital Status Assessments through Week 52. Subjects who 
withdraw consent in writing will cease all study procedures including vital status 
assessments. 
 
Study Treatment Pre-Restart and Restart Visits 
Subjects should be encouraged to restart study treatment whenever possible and 
appropriate. If the subject has interrupted study treatment for ≥28 days, Restart Visits are 
required. The Pre-Restart Visit will be conducted on the day study treatment is resumed, 
followed by Restart Visits at Weeks 1, 3 (phone visits); 5, and 13 to be scheduled based on 
the date of study treatment restart.  The following procedures will be performed at the Pre-
Restart Visit: 
 
1. Directed history (including review of AEs/SAEs, concomitant medications, oxygen use, and 
hospitalizations, clinical and exposure history). 
2. Physical examination, vital signs, and weight. 
3. Clinical laboratory assessments, including hematology, serum chemistries, and pregnancy 
test for women of childbearing capacity. 
4. Instruction on how to re-titrate the dose of study treatment. 
5. Dispensing of study treatment, as necessary. 
6. Dispensing of patient diary, as necessary. 
 
Visit requirements and visit windows for Restart Week 1 and 3 (phone visits) and Restart 
Weeks 5, and 13 are the same as those described above. 
 
Subjects who restart study treatment will resume the visit schedule based on their date of 
randomization. If a regularly scheduled visit (Weeks 13, 26, 39, etc.) coincides with one of 
the Restart Visits (Restart Weeks 5), then all of the elements of the regularly scheduled visit 
should be performed in lieu of the Restart Visit (see clinical IB section 3). 
 
QTc Monitoring 
During the study, if the QTc interval is >550 msec., confirmed by a repeat ECG within 24 h, 
the study drug will be interrupted until the reading is confirmed by the ECG safety officer. If 
the reading is confirmed, the subject will be discontinued from study treatment. If the QTc 
interval is between 500 and 550 msec., confirmed by a repeat ECG within 24 hours, study 
treatment will be interrupted. If an alternative explanation is identified (e.g., electrolyte 
abnormality or concomitant medication), re-initiation of study treatment will be considered 

 
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by the investigator. ECG data will be entered directly into the research’s database. 
 
Patients Lost to Follow-Up 
If a subject has missed a visit and is not responding to no more than 2 attempted telephone 
calls from the site (all attempts to contact the subject should be documented).  The site 
should then make no more than 2 attempts to contact the subject’s emergency contact. If 
these attempts are not successful, a registered letter should be sent to the last known 
address of the subject. If this is not successful, as a last resort, the site should check the 
national death registries, where approved by regulatory authorities and available. If this is 
unsuccessful, the subject will be considered lost to follow-up. 
  
STATISTICAL METHODS 
 
Randomization and Treatment Assignment 
In this double-blind study, subjects will be randomized to receive either pirfenidone 2403 
mg/d or placebo in a 2:1 ratio.   
 
Sample Size and Power Considerations 
The sample size and power calculations for this study are based on the primary endpoint, 
mean change in %FVC from Baseline to Week 52. Estimates are based on the results from the 
National Jewish Health pilot data of FHP (N=30 patients with biopsy and HRCT FHP pattern).   
For the primary efficacy comparison of change in mean %FVC between the treatment (2403 
mg/d) and placebo groups, about 13 patients in the placebo and 25 (N=38) in the treatment 
group will provide at least 85% power to detect a mean difference between groups of 2%.  
Assuming a 10% attrition rate approximately 42 subjects will be enrolled and randomized in 
a 2:1 ratio to pirfenidone 2403 mg/d or placebo.   
These calculations assume a standard deviation in the %FVC change from baseline to 52 
weeks of 2% and are based on a 2-sample means t-test with a 2-sided Type I error probability 
of 0.05.  
 
Analysis Populations 
The intent-to-treat population, consisting of all subjects who signed the informed consent 
form and were randomized, will be used as the primary population for efficacy analyses. The 
safety analysis population will include all subjects who signed informed consent and received 
any amount of study drug.  The trial results will be reported according to guidelines specified 
in the Revised Consolidated Standards of Reporting Trials (CONSORT) statement.23 A flow 
diagram describing screening, recruitment, randomization, dropout, and vital status will be 
included in the primary study report. 
 
          Statistical Analyses 
 

 
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Demographic and Baseline Data 
Descriptive statistics will be used to summarize demographic, baseline subject characteristics 
and to assess safety. Continuous-scaled variables (e.g., age) will be summarized with means, 
medians, standard deviations, quartiles, and minimum and maximum values. Categorical 
variables (e.g., sex) will be summarized using patient counts and percentages.  
Baseline medical histories, medications and pre-existing conditions will be summarized by 
treatment groups. 
 
Efficacy Analyses 
 
Primary Efficacy Outcome Variable and Analysis 
The primary efficacy analysis will estimate the mean rank change in %FVC from Baseline to 
Week 52.  Data will be analyzed using a rank linear regression model with the rank change in 
%FVC from Baseline to Week 52 as the outcome variable and rank Baseline %FVC and HP 
therapy (placebo or pirfenidone) and concomitant immunosuppressive therapy as 
covariates. The treatment effect will be tested using the Wald test. 
The primary efficacy analysis will be tested at an alpha level of 0.05.  Missing data due to 
reasons other than death will be replaced with imputed values using the MICE method 
(multiple imputation via chained equations).24 Missing data due to lung transplant will be 
imputed using the MICE method even if the subject dies after lung transplant. 
Subjects with missing assessments due to death will be ranked worse than those who remain 
alive. Subjects who die will be ranked according to the time until death, with the shortest 
time until death as the worst rank. 
Supportive analyses of the primary efficacy outcome will include the following: 
1. Landmark analyses of mean change in %FVC from Baseline to Weeks 13, 26, 39 and 52. 
2. Mean rank change in %FVC compared to Baseline across all study time points using a 
rank linear mixed effects model for repeated measures.  
 
Key Secondary Efficacy Outcome Variables and Analyses 
Multiplicity adjustment will be performed across all secondary endpoints. 
 
Progression-free survival will be compared between the pirfenidone 2403 mg/d and placebo 
groups using the log-rank test. A proportional hazards model will be used to estimate the 
hazard ratio. Descriptive analysis of progression free survival will be presented using Kaplan-
Meier curves.  Mortality will be analyzed using logistic regression with a treatment effect and 
accounting for potential over- or under-dispersion in the outcome.   
 
The slope for annual rate of FVC decline will be analyzed using a random coefficient 
regression model with treatment and baseline FVC as covariates. 
 
DLCO will be analyzed using a rank linear regression model with the rank change in %DLCO 

 
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from Baseline to Week 52 as the outcome variable and rank Baseline %DLCO and HP therapy 
as covariates. 
 
Non-elective hospitalization from any cause and CT progression of fibrosis will be compared 
between the pirfenidone 2403 mg/d and placebo groups using logistic regression accounting 
for possible over- or under-dispersion in the outcome.  
 
Exploratory Outcome Variables 
 
Questionnaire-based outcomes comparing Baseline to 52 weeks will be analyzed using 
a linear regression model with a separate intercept for each subject, a dichotomous time-
point effect, and a multiplicative interaction between time-point and treatment. 
 
Changes in texture-based quantitative analysis of CT progression of fibrosis will be analyzed 
using multinomial regression with a separate intercept for each subject, a dichotomous time-
point effect, and a multiplicative interaction between time-point and treatment. 
 
Statistical analyses of RNA-seq and ChIP-seq results from PBMC samples will be performed 
with the DESeq2 packagein the R language. The p-values of Wald tests for differential 
expression will be adjusted using the Benjamini-Hochberg false discovery rate procedure to 
account for multiple testing after filtering out genes with mean normalized counts below a 
threshold. Significantly differentially expressed genes will be assigned to biochemical 
pathways and functional categories using KEGG and Gene Ontology databases using tools 
including GATHER, DAVID, R packages such as KEGGprofile and topGO, as well as Ingenuity 
pathway analysis. Diversity of immune cell types will be derived from the gene expression 
profiles of each sample to ensure valid comparisons and modeling. Expression profiles 
(baseline and week 52) will be correlated within the two HP arms using an ANOVA analysis. 
 
Safety Analyses 
Adverse event and drug reaction outcomes will be presented using standard summary 
statistics.  
AEs will be mapped to system organ classes and preferred terms in MedDRA. Treatment 
emergent events are defined as those that start or worsen after the start of study treatment 
and up to 28 days after the last dose of study treatment. AEs will be summarized by 
treatment group, system organ class, and preferred term, and also by event severity and by 
the event’s relationship to study treatment. At each level of summation, subjects will be 
counted only once, under the greatest severity and strongest study-drug relationship (as 
reported by the investigator).   
Clinical laboratory data will be summarized for each treatment group at each measurement 
time point and for each subjects final post-Baseline measurement in the following ways: (1) 
with descriptive statistics (mean, standard deviation, median, and range) for each 

 
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measurement time point; (2) with descriptive statistics for the change from Baseline in the 
measurements at each post-Baseline time point; and (3) with shift tables summarizing the 
frequencies of patients below, within, and above the normal ranges at each time point as 
compared with Baseline. All clinical laboratory values collected during the study will be 
listed, with values outside the normal ranges flagged for clinical evaluation. Grade 3 and 4 
laboratory results will be listed and summarized. Vital signs will be summarized by treatment 
group and listed for each patient. Concomitant medications will be summarized by 
treatment group based on mapping to drug classes and generic terms in the WHO Drug 
Dictionary. 
 
Trial Monitoring  
Throughout the study, the safety officer will review individual SAE reports and laboratory 
toxicities. In addition, the safety officer will review all safety data after 50% of enrollment is 
completed as well as SAEs on an ongoing basis. At all times during the course of the study, 
the safety officer may request access to unblinded data if needed.  
 
SAFETY REPORTING OF ADVSERSE EVENTS  
 
Assessment of Safety 
Specification of Safety Variables  
Safety assessments will consist of monitoring and reporting adverse events (AEs) and serious 
adverse events (SAEs) per protocol.  This includes all events of death, and any study specific 
issue of concern. 
 
Adverse Events 
An AE is any unfavorable and unintended sign, symptom, or disease temporally associated 
with the use of an investigational medicinal product (IMP) or other protocol-imposed 
intervention, regardless of attribution. 
 
This includes the following: 
1. AEs not previously observed in the subject that emerge during the protocol-specified 
AE reporting period, including signs or symptoms associated with FHP that were not 
present prior to the AE reporting period. 
2. Complications that occur as a result of protocol-mandated interventions (e.g.  
procedures such as 6 Minute Walk Test). 
3. If applicable, AEs that occur prior to assignment of study treatment associated with 
medication washout, no treatment run-in, or other protocol-mandated intervention. 
4. Preexisting medical conditions (other than the condition being studied) judged by the 
investigator to have worsened in severity or frequency or changed in character during 
the protocol-specified AE reporting period.  
 

 
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Serious Adverse Events 
An AE should be classified as an SAE if the following criteria are met: 
1. It results in death (i.e., the AE actually causes or leads to death). 
2. It is life threatening (i.e., the AE, in the view of the investigator, places the subject at 
immediate risk of death. It does not include an AE that, had it occurred in a more 
severe form, might have caused death.). 
3. It requires or prolongs inpatient hospitalization. 
4. It results in persistent or significant disability/incapacity (i.e., the AE results in 
substantial disruption of the subject’s ability to conduct normal life functions). 
5. It results in a congenital anomaly/birth defect in a neonate/infant born to a mother 
exposed to the IMP. 
6. It is considered a significant medical event by the investigator based on medical 
judgment (e.g., may jeopardize the subject or may require medical/surgical 
intervention to prevent one of the outcomes listed above). 
 
Methods and Timing for Assessing and Recording Safety variables 
The study team is responsible for ensuring that all AEs and SAEs that are observed or 
reported during the study, are collected and reported to the FDA, appropriate IRB(s), and 
Genentech, Inc. in accordance with CFR 312.32 (IND Safety Reports).  
 
Adverse Event Reporting Period 
The study period during which all AEs and SAEs as described in section J where the patient has 
been exposed to Genentech product must be reported begins after informed consent is 
obtained and the initiation of study treatment and ends 28 days following the last 
administration of study treatment or study discontinuation/termination, whichever is earlier. 
After this period, investigators should only report SAEs that are attributed to prior study 
treatment. 
 
Assessment of Adverse Events 
All AEs and SAEs whether volunteered by the subject, discovered by study personnel during 
questioning, or detected through physical examination, laboratory test, or other means will 
be reported appropriately. Each reported AE or SAE will be described by its duration 
(i.e., start and end dates), regulatory seriousness criteria if applicable, suspected relationship 
to the study drug (see following guidance), and actions taken.  To ensure consistency of AE 
and SAE causality assessments, investigators should apply the following general guideline: 
Yes 
There is a plausible temporal relationship between the onset of the AE and administration of 
the study drug (Pirfenidone), and the AE cannot be readily explained by the subject’s clinical 
state, intercurrent illness, or concomitant therapies; and/or the AE follows a known pattern 
of response to the study drug (Pirfenidone); and/or the AE abates or resolves upon 
discontinuation of the study drug or dose reduction and, if applicable, reappears upon re-

 
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challenge. 
No 
Evidence exists that the AE has an etiology other than the study drug (Pirfenidone) (e.g., 
preexisting medical condition, underlying disease, intercurrent illness, or concomitant 
medication); and/or the AE has no plausible temporal relationship to study drug 
administration (e.g., cancer diagnosed 2 days after first dose of study drug). 
Expected adverse events are those adverse events that are listed or characterized in the 
Package Insert (P.I) or current Investigator Brochure (I.B).  
Unexpected adverse events are those not listed in the P.I or current I.B or not identified. This 
includes adverse events for which the specificity or severity is not consistent with the 
description in the P.I. or I.B. For example, under this definition, hepatic necrosis would be 
unexpected if the P.I. or I.B. only referred to elevated hepatic enzymes or hepatitis. 
 
Procedures for Eliciting, Recording, and Reporting Adverse Events 
Eliciting Adverse Events 
A consistent methodology for eliciting AEs at all subject evaluation time points should be 
adopted. Examples of non-directive questions include:  
“How have you felt since your last clinical visit?” 
“Have you had any new or changed health problems since you were last here?”  
 
Specific Instructions for Recording Adverse Events 
Investigators should use correct medical terminology/concepts when reporting AEs or SAEs. 
Avoid colloquialisms and abbreviations. 
 
a. 
Diagnosis vs. Signs and Symptoms 
If known at the time of reporting, a diagnosis should be reported rather than individual signs 
and symptoms (e.g., record only liver failure or hepatitis rather than jaundice, asterixis, and 
elevated transaminases). However, if a constellation of signs and/or symptoms cannot be 
medically characterized as a single diagnosis or syndrome at the time of reporting, it is 
acceptable to report the information that is currently available. If a diagnosis is subsequently 
established, it should be reported as follow-up information. 
 
b. 
Deaths 
All deaths that occur during the protocol-specified AE reporting period (see Section I), 
regardless of attribution, will be reported to the appropriate parties. When recording a 
death, the event or condition that caused or contributed to the fatal outcome should be 
reported as the single medical concept. If the cause of death is unknown and cannot be 
ascertained at the time of reporting, report “Unexplained Death”. 
 
c. 
Preexisting Medical Conditions 
A preexisting medical condition is one that is present at the start of the study. Such 

 
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conditions should be reported as medical and surgical history. A preexisting medical 
condition should be re-assessed throughout the trial and reported as an AE or SAE only if the 
frequency, severity, or character of the condition worsens during the study. When reporting 
such events, it is important to convey the concept that the preexisting condition has changed 
by including applicable descriptors (e.g., “more frequent headaches”). 
 
d. 
Hospitalizations for Medical or Surgical Procedures 
Any AE that results in hospitalization or prolonged hospitalization should be documented 
and reported as an SAE. If a subject is hospitalized to undergo a medical or surgical 
procedure as a result of an AE, the event responsible for the procedure, not the procedure 
itself, should be reported as the SAE. For example, if a subject is hospitalized to undergo 
coronary bypass surgery, record the heart condition that necessitated the bypass as the SAE. 
 
Hospitalizations for the following reasons do not require reporting: 
1. Hospitalization or prolonged hospitalization for diagnostic or elective surgical 
procedures for preexisting conditions 
2. Hospitalization or prolonged hospitalization required to allow efficacy measurement 
for the study or 
3. Hospitalization or prolonged hospitalization for scheduled therapy of the target 
disease of the study. 
 
e.          Assessment of Severity of Adverse Events 
The adverse event severity grading scale for the NCI CTCAE (v5.0) Update current versions) 
will be used for assessing adverse event severity. Below Table should be used for assessing 
severity for adverse events that are not specifically listed in the NCI CTCAE. 
 
Adverse Event Severity Grading Scale for Events Not Specifically Listed in NCI CTCAE 
Grade 
Severity 
1 
Mild; asymptomatic or mild symptoms; clinical or diagnostic 
observations only; or intervention not indicated 
2 
Moderate; minimal, local, or non-invasive intervention indicated; 
or limiting age-appropriate instrumental activities of daily living a 
3 
Severe or medically significant, but not immediately 
life-threatening; hospitalization or prolongation of hospitalization 
indicated; disabling; or limiting self-care activities of daily living b,c 
4 
Life-threatening consequences or urgent intervention indicated d 
5 
Death related to adverse event d 

 
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NCI CTCAE = National Cancer Institute Common Terminology Criteria for Adverse 
Events. 
Note:  Based on the most recent version of NCI CTCAE (v5.0) which can be found 
at:  http://ctep.cancer.gov/protocolDevelopment/electronic_applications/ctc.htm 
Instrumental activities of daily living refer to preparing meals, shopping for 
groceries or clothes, using the telephone, managing money, etc. 
Examples of self-care activities of daily living include bathing, dressing and 
undressing, feeding oneself, using the toilet, and taking medications, as performed 
by patients who are not bedridden. 
If an event is assessed as a "significant medical event," it must be reported as a 
serious adverse event  
Grade 4 and 5 events must be reported as serious adverse events  
 
f. 
Pregnancy 
If a female subject becomes pregnant while receiving the study drug or within 90 days after 
the last dose of study drug, or if the female partner of a male study subject becomes 
pregnant while the study subject is receiving the study drug or within 90 days after the last 
dose of study drug, a report should be completed and expeditiously submitted to Genentech, 
Inc. Follow-up to obtain the outcome of the pregnancy should also occur. Abortion, whether 
accidental, therapeutic, or spontaneous, should always be classified as serious, and 
expeditiously reported as an SAE. Similarly, any congenital anomaly/birth defect in a child 
born to a female subject exposed to the study drug should be reported as an SAE. 
 
g. 
Post-Study Adverse Events 
The investigator should expeditiously report any SAE occurring after a subject has completed 
or discontinued study participation if attributed to prior Pirfenidone exposure. If the 
investigator should become aware of the development of cancer or a congenital anomaly in 
a subsequently conceived offspring of a female subject who participated in the study, this 
should be reported as an SAE. Including pregnancy occurring in the partner of a male study 
subject] who participated in the study, this should be reported as an SAE adequately to 
Genentech drug Safety during follow up period 
 
h.     
Reconciliation 
The Sponsor agrees to conduct the Case Transmission verification to ensure that all single 
case reports have been adequately received by Genentech via sponsor emailing Genentech a 
Quarterly line-listing documenting single case reports sent by sponsor to Genentech in the 
preceding time period.  
The periodic line-listing will be exchanged within seven (7) calendar days of the end of the 
agreed time period. Confirmation of receipt should be received within the time period 
mutually agreed upon. 
                    

 
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If discrepancies are identified, the Sponsor and Genentech will cooperate in resolving the 
discrepancies. The responsible individuals for each party shall handle the matter on a case-
by-case basis until satisfactory resolution.  The sponsor shall receive reconciliation guidance 
documents within the ‘Activation Package’. 
 
Following Case Transmission Verification, single case reports which have not been received 
by Genentech shall be forwarded by sponsor to Genentech within five (5) calendar days from 
request by Genentech. 
 
At the end of the study, a final cumulative Case Transmission Verification report will be sent 
to Genentech 
 
h.  
AEs of Special Interest (AESIs) 
AESIs are a subset of Events to Monitor (EtMs) of scientific and medical concern specific to 
the product, for which ongoing monitoring and rapid communication by the Investigator to 
the Sponsor is required. Such an event might require further investigation in order to 
characterize and understand it. Depending on the nature of the event, rapid communication 
by the trial Sponsor to other parties (e.g., Regulatory Authorities) may also be warranted. 
  
Adverse events of special interest for this study include the following: 
1. Cases of potential drug-induced liver injury that include an elevated ALT or AST in 
combination with either an elevated bilirubin or clinical jaundice, as defined by Hy’s 
law: 
a. Treatment-emergent ALT or AST  3  ULN in combination with total bilirubin 
 2  ULN 
b. Treatment-emergent ALT or AST  3  ULN in combination with clinical jaundice 
2. Suspected transmission of an infectious agent by the study drug, as defined below: 
a. Any organism, virus, or infectious particle (e.g., prion protein transmitting 
transmissible spongiform encephalopathy), pathogenic or non-pathogenic, is 
considered an infectious agent.  A transmission of an infectious agent may be 
suspected from clinical symptoms or laboratory findings that indicate an infection 
in a patient exposed to a medicinal product.  This term applies only when a 
contamination of the study drug is suspected 
 
The Pirfenidone Events of Special Interest are: None 
 
i. Exchange of SINGLE CASE REPORTS 
 
Sponsor will track all protocol-defined AE Serious Adverse Events (SAEs), AEs of Special 
Interest (AESIs), Special Situation Reports and pregnancy reports originating from the 
Study for the Product and and Product Complaints (with or without an AE) originating 

 
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from the Study for the Product.  
 
Investigators must report all Adverse Events/ Serious Adverse events (SAEs), AEs of 
Special Interest (AESIs) pregnancy reports and special situation reports (if applicable) 
adequately to Genentech within the timelines described below. The completed 
MedWatch or CIOMS I form or Genentech approved reporting forms should be faxed 
immediately upon completion to Genentech Drug Safety at: 
 
Fax: 650-238-6067 
Email: usds_aereporting-d@gene.com 
 
All Product Complaints without an AE should be sent to: 
PC Hotline Number: (800) 334-0290 (M-F: 5 am to 5 pm PST) 
 
Relevant follow-up information should be submitted to Genentech Drug Safety as soon 
as it becomes available and/or upon request 
 
It is understood and agreed that the Sponsor will be responsible for the evaluation of 
AEs/SAEs, AESIs, Special Situation Reports (including pregnancy reports) and Product 
Complaints (with or without an AE) originating from the study.  
These single case reports will be exchanged between the parties as outlined below so 
that regulatory obligations are met. 
 
SADRs 
Serious AE reports that are related to the Product shall be transmitted to Genentech 
within fifteen (15) calendar days of the awareness date. 
 
Other SAEs 
Serious AE reports that are unrelated to the Product shall be transmitted to 
Genentech within thirty (30) calendar days of the awareness date 
 
AESIs 
AESIs shall be forwarded to Genentech within fifteen (15) calendar days of the 
awareness date. 
 
Special Situation Reports 
Pregnancy reports 
While such reports are not serious AEs or Adverse Drug Reactions (ADRs) per se, as 
defined herein, any reports of pregnancy (including pregnancy occurring in the 
partner of a male study subject), where the fetus may have been exposed to the 
Product, shall be transmitted to Genentech within thirty (30) calendar days of the 

 
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awareness date. Pregnancies will be followed up until the outcome of the pregnancy is 
known, whenever possible, based upon due diligence taken to obtain the follow-up 
information. 
 
Pregnancies in Female Partners of Male Patients  
Male patients will be instructed through the Informed Consent Form to immediately 
inform the investigator if their partner becomes pregnant during the study or within 30 
days after the last dose of study drug.  A Clinical Trial Pregnancy Reporting Form should 
be completed and submitted to Genentech within thirty (30) calendar days of the 
awareness date.  
 
Non-serious ADRs 
Non-serious ADRs shall be transmitted to Genentech on a periodic (e.g., monthly) line-
listing containing the following elements (Protocol number, Patient ID, Patient birth 
date, Adverse event/MedDRA term, Seriousness of event, Onset date of event, Death 
date, Product received, Date of first dose, Cause(s) of event, Adverse event description). 
 
Other special situation reports 
In addition to all SAEs, pregnancy reports and AESIs, the following Special Situations 
Reports should be collected even in the absence of an Adverse Event and transmitted to 
Genentech within thirty (30) calendar days: 
 
1. Data related to the Product usage during pregnancy or breastfeeding 
2. Data related to overdose, abuse, off-label use, misuse, inadvertent/erroneous 
administration, medication error (including potentially exposed in case of medication 
errors or intercepted medication errors) or occupational exposure, with or without 
association with an AE/SAE unless otherwise specified in the protocol 
3. Lack of therapeutic efficacy 
4. Drug interaction 
5. Use of a Medicinal Product in a Pediatric and Elderly population (in addition, 
reasonable attempts should be made to obtain and submit the age or age group of 
the patient, in order to be able to identify potential safety signals specific to a 
particular population) 
     
Occasionally Genentech may contact the reporter for additional information, 
clarification, or current status of the patient for whom an adverse event was reported 
 
Product Complaints  
All Product Complaints (with or without an AE) shall be forwarded to Genentech within 
fifteen (15) calendar days of the awareness date. 
 

 
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A Product Complaint is defined as any written or oral information received from a 
complainant that alleges deficiencies related to identity, quality, safety, strength, purity, 
reliability, durability, effectiveness, or performance of a product after it has been 
released and distributed to the commercial market or clinical trial. 
 
MedWatch 3500A Reporting Guidelines 
In addition to completing appropriate subject demographic and suspect medication 
information, the report should include the following information within the Event 
Description (section 5) of the MedWatch 3500A form: 
1. Protocol description (and number, if assigned) 
2. Description of event, severity, treatment, and outcome if known 
3. Supportive laboratory results and diagnostics 
4. Investigator’s assessment of the relationship of the adverse event to each 
investigational product and suspect medication 
 
Follow-up Information 
Additional information may be added to a previously submitted report by any of the 
following methods: 
1. Adding to the original MedWatch 3500A report and submitting it as follow-up 
2. Adding supplemental summary information and submitting it as follow-up with 
the original MedWatch 3500A form  
3. Summarizing new information and faxing it with a cover letter including patient 
identifiers (i.e. D.O.B. initial, patient number), protocol description and number, if 
assigned, brief adverse event description, and notation that additional or follow-
up information is being submitted (The patient identifiers are important so that 
the new information is added to the correct initial report) 
 
Occasionally Genentech may contact the reporter for additional information, 
clarification, or current status of the patient for whom and adverse event was reported. 
For questions regarding SAE reporting, you may contact the Genentech Drug Safety 
representative noted above or the MSL assigned to the study. Relevant follow-up 
information should be submitted to Genentech Drug Safety as soon as it becomes 
available and/or upon request. 
 
MedWatch 3500A (Mandatory Reporting) form is available at 
https://www.fda.gov/media/69876/download 
 
Reporting to Regulatory Authorities, Ethics Committees and Investigators 
 
Genentech as the Sponsor of the Study, will be responsible for the expedited reporting 
of safety reports originating from the Study to the Regulatory Authorities (FDA) where 

 
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it has filed a clinical trial approval, in compliance with local regulations 
 
Genentech as the Sponsor of the Study, will be responsible for the expedited reporting 
of safety reports originating from the study to the EMA through Eudravigilance Clinical 
Trial Module (EVCTM), where applicable.  
 
National Jewish Health will be responsible for the expedited reporting of safety reports 
originating from the Study to the Ethics Committees and Institutional Review Boards 
(IRB), where applicable. 
 
National Jewish Health will be responsible for the distribution of safety information to 
its own investigators, where relevant, in accordance with local regulations. 
 
Additional Reporting Requirements for IND Holders (if applicable) 
 
For Investigator-Initiated IND Studies, some additional reporting requirements for the 
FDA apply in accordance with the guidance set forth in 21 CFR § 
600.80. 
 
Events meeting the following criteria need to be submitted to the Food and Drug 
Administration (FDA) as expedited IND Safety Reports according to the following 
guidance and timelines: 
 
Calendar Day Telephone or Fax Report: 
 
The Investigator is required to notify the FDA of any fatal or life-threatening adverse 
event that is unexpected and assessed by the Investigator to be possibly related to the 
use of Pirfenidone an unexpected adverse event is one that is not already described in 
the Pirfenidone Investigator Brochure. Such reports are to be telephoned or faxed to the 
FDA and Genentech/Roche within 7 calendar days of first learning of the event. 
 
Calendar Day Written Report 
 
The Investigator is also required to notify the FDA and all participating investigators, in a 
written IND Safety Report, of any serious, unexpected AE that is considered reasonably 
or possibly related to the use of Pirfenidone. An unexpected adverse event is one that is 
not already described in the Pirfenidone investigator brochure. 
 
Written IND Safety reports should include an Analysis of Similar Events in accordance 
with regulation 21 CFR 
§ 312.32. All safety reports previously filed by the investigator with the IND concerning 

 
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similar events should be analyzed and the significance of the new report in light of the 
previous, similar reports commented on. 
 
Written IND safety reports with Analysis of Similar Events are to be submitted to the 
FDA, Genentech/Roche, and all participating investigators within 15 calendar days of first 
learning of the event. The FDA prefers these reports on a MedWatch 3500 form, but 
alternative formats are acceptable (e.g., summary letter). 
 
FDA fax number for IND Safety Reports: 
 
Fax: 1 (800) FDA 0178 
 
All written IND Safety Reports submitted to the FDA by the Investigator must also be 
faxed to 
Genentech/Roche Drug Safety: 
 
Fax: (650) 225-4682 or (650) 225-4630 
 
Study Close-Out 
Any study report submitted to the FDA by the Sponsor-Investigator should be copied to 
Genentech. This includes all IND annual reports and the Clinical Study Report (final study 
report). Additionally, any literature articles that are a result of the study should be sent 
to Genentech. Copies of such reports should be sent to the assigned Clinical Operations 
contact for the study: 
 
Esbriet Clinical Operations:   
Email: esbriet-gsur@gene.com 
Fax: (866) 312-5695 
 
And to Genentech Drug Safety CTV oversight mail box at: ctvist_drugsafety@gene.com 
 
Sponsor will forward a copy of the Publication to Genentech/Roche upon completion of 
the Study. 
 
And to Genentech Drug Safety CTV oversight mail box at: ctvist_drugsafety@gene.com 
 
QUERIES 
 
Queries related to the Study will be answered by sponsor. However, responses to all 
safety queries from regulatory authorities or for publications will be discussed and 
coordinated between the Parties. The Parties agree that Genentech/Roche shall have the 

 
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final say and control over safety queries relating to the Product. National Jewish Health 
agrees that it shall not answer such queries from regulatory authorities and other 
sources relating to the Product independently but shall redirect such queries to 
Genentech/Roche. 
 
Both Parties will use all reasonable effort to ensure that deadlines for responses to 
urgent requests for information or review of data are met. The Parties will clearly 
indicate on the request the reason for urgency and the date by which a response is 
required. 
 
SAFETY CRISIS MANAGEMENT 
 
In case of a safety crisis, e.g., where safety issues have a potential impact on the 
indication(s), on the conduct of the Study, may lead to labeling changes or regulatory 
actions that limit or restrict the way in which the Product is used, or where there is media 
involvement, the Party where the crisis originates will contact the other Party as soon as 
possible. 
 
The Parties agree that Genentech/Roche shall have the final say and control over safety 
crisis management issues relating to the Product. National Jewish Health agrees that it 
shall not answer such queries from media and other sources relating to the Product but 
shall redirect such queries to Genentech/Roche. 
 
Randomization Codes for blinded clinical trials (if applicable) 
 
The blind will be broken for ADR reports that are Serious and Unexpected, unless 
otherwise agreed with applicable regulatory authorities. 
 
IND Annual Reports 
 
Copies to Genentech: 
 
All IND annual reports submitted to the FDA by the Sponsor-Investigator should be 
copied to Genentech. Copies of such reports should be emailed to Genentech at:  
Genentech Drug Safety CTV mail box: ctvist_drugsafety@gene.com 
 
COMPLIANCE WITH PHARMACOVIGILANCE AGREEMENT / AUDIT 
 
The Parties shall follow their own procedures for adherence to AE 
reporting timelines.  

 
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Each Party shall monitor and, as applicable, request feedback from the other Party 
regarding AE report timeliness in accordance with its own procedures. The Parties agree 
to provide written responses in a timely manner to inquiries from the other Party 
regarding AE reports received outside the agreed upon Agreement timelines. If there is 
any detection of trends of increasing or persistent non-compliance to transmission 
timelines stipulated in this Agreement, both Parties agree to conduct ad hoc or institute 
a regular joint meeting to address the issue. 
In case of concerns related to non-compliance of processes, other than exchange 
timelines, with this Agreement, the Parties will jointly discuss and collaborate on 
clarifying and resolving the issues causing non-compliance. Every effort will be made by 
the non-compliant Party to solve the non-compliance issues and inform the other Party 
of the corrective and preventative actions taken. 
Upon justified request, given sufficient notice of no less than sixty (60) calendar days, an 
audit under the provisions of this Agreement can be requested by either Party. The 
Parties will then discuss and agree in good faith upon the audit scope, agenda and 
execution of the audit. The requesting Party will bear the cost of the audit. 
 
 
 
 
 

 
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SAFETY REPORTING FAX COVER SHEET 
GENENTECH SUPPORTED RESEARCH 
 
AE / SAE FAX No: (650) 238-6067 
 
Genentech Study Number 
 
Principal Investigator 
 
Site Name 
 
Reporter name 
 
Reporter Telephone # 
 
Reporter Fax # 
 
 
 
 
Initial Report Date 
[INSERT investigational product name] / 
[INSERT investigational product name] / 
[INSERT investigational product name] 
Follow-up Report Date 
[INSERT investigational product name] / 
[INSERT investigational product name] / 
[INSERT investigational product name] 
Subject Initials 
(Enter a dash if patient has no 
middle name) 
 
[ ] - [ ] - [ ] 
 
 
 
SAE or Safety Reporting questions, contact Genentech Drug Safety: (888) 835-2555 
 
PLEASE PLACE MEDWATCH REPORT or SAFETY REPORT BEHIND THIS COVER SHEET 
 
 
 
 
 
 
 
 
 

 
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REFERENCES 
 
1. 
Selman M, Pardo A, King TE, Jr. Hypersensitivity pneumonitis: insights in diagnosis 
and pathobiology. Am J Respir Crit Care Med 2012;186:314-24. 
2. 
Fernández Pérez ER FA, Raimundo K, Kulkarni R, Cole A. Incidence and Prevalence of 
Hypersensitivity Pneumonitis in the US. ATS Abstract 2016. 
3. 
Fernandez Perez ER, Brown KK. Fibrotic hypersensitivity pneumonitis. Curr Resp Care 
Rep 2014;3:170-8. 
4. 
Fernandez Perez ER, Swigris JJ, Forssen AV, et al. Identifying an inciting antigen is 
associated with improved survival in patients with chronic hypersensitivity pneumonitis. 
Chest 2013;144:1644-51. 
5. 
Hanak V, Golbin JM, Hartman TE, Ryu JH. High-resolution CT findings of parenchymal 
fibrosis correlate with prognosis in hypersensitivity pneumonitis. Chest 2008;134:133-8. 
6. 
Vourlekis JS, Schwarz MI, Cherniack RM, et al. The effect of pulmonary fibrosis on 
survival in patients with hypersensitivity pneumonitis. Am J Med 2004;116:662-8. 
7. 
Mooney JJ, Elicker BM, Urbania TH, et al. Radiographic fibrosis score predicts survival 
in hypersensitivity pneumonitis. Chest 2013;144:586-92. 
8. 
Takemura T, Akashi T, Ohtani Y, Inase N, Yoshizawa Y. Pathology of hypersensitivity 
pneumonitis. Curr Opin Pulm Med 2008;14:440-54. 
9. 
Suga M, Iyonaga K, Okamoto T, et al. Characteristic elevation of matrix 
metalloproteinase activity in idiopathic interstitial pneumonias. Am J Respir Crit Care Med 
2000;162:1949-56. 
10. 
Willems S, Verleden SE, Vanaudenaerde BM, et al. Multiplex protein profiling of 
bronchoalveolar lavage in idiopathic pulmonary fibrosis and hypersensitivity pneumonitis. 
Ann Thorac Med 2013;8:38-45. 
11. 
Raghu G, Collard HR, Egan JJ, et al. An official ATS/ERS/JRS/ALAT statement: 
idiopathic pulmonary fibrosis: evidence-based guidelines for diagnosis and management. Am 
J Respir Crit Care Med 2011;183:788-824. 
12. 
Koschel DS, Cardoso C, Wiedemann B, Hoffken G, Halank M. Pulmonary hypertension 
in chronic hypersensitivity pneumonitis. Lung 2012;190:295-302. 
13. 
Smith M, Dalurzo M, Panse P, Parish J, Leslie K. Usual interstitial pneumonia-pattern 
fibrosis in surgical lung biopsies. Clinical, radiological and histopathological clues to 
aetiology. J Clin Pathol 2013;66:896-903. 
14. 
Travis WD, Costabel U, Hansell DM, et al. An official American Thoracic 
Society/European Respiratory Society statement: Update of the international 
multidisciplinary classification of the idiopathic interstitial pneumonias. Am J Respir Crit Care 
Med 2013;188:733-48. 
15. 
Olson AL, Huie TJ, Groshong SD, et al. Acute exacerbations of fibrotic hypersensitivity 
pneumonitis: a case series. Chest 2008;134:844-50. 
16. 
Ley B, Newton CA, Arnould I, et al. The MUC5B promoter polymorphism and 
telomere length in patients with chronic hypersensitivity pneumonitis: an observational 

 
NJH FHP Study Protocol: ML29875 
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Confidential 
cohort-control study. Lancet Respir Med 2017;5:639-47. 
17. 
King TE, Jr., Bradford WZ, Castro-Bernardini S, et al. A phase 3 trial of pirfenidone in 
patients with idiopathic pulmonary fibrosis. N Engl J Med 2014;370:2083-92. 
18. 
Noble PW, Albera C, Bradford WZ, et al. Pirfenidone in patients with idiopathic 
pulmonary fibrosis (CAPACITY): two randomised trials. Lancet 2011;377:1760-9. 
19. 
Taniguchi H, Ebina M, Kondoh Y, et al. Pirfenidone in idiopathic pulmonary fibrosis. 
Eur Respir J 2010;35:821-9. 
20. 
Azuma A, Nukiwa T, Tsuboi E, et al. Double-blind, placebo-controlled trial of 
pirfenidone in patients with idiopathic pulmonary fibrosis. Am J Respir Crit Care Med 
2005;171:1040-7. 
21. 
Nagai S, Hamada K, Shigematsu M, Taniyama M, Yamauchi S, Izumi T. Open-label 
compassionate use one year-treatment with pirfenidone to patients with chronic pulmonary 
fibrosis. Intern Med 2002;41:1118-23. 
22. 
Khanna D, Albera C, Fischer A, et al. An Open-label, Phase II Study of the Safety and 
Tolerability of Pirfenidone in Patients with Scleroderma-associated Interstitial Lung Disease: 
the LOTUSS Trial. J Rheumatol 2016. 
23. 
MacPherson H, Altman DG, Hammerschlag R, et al. Revised STandards for Reporting 
Interventions in Clinical Trials of Acupuncture (STRICTA): Extending the CONSORT statement. 
J Evid Based Med 2010;3:140-55. 
24. 
Azur MJ, Stuart EA, Frangakis C, Leaf PJ. Multiple imputation by chained equations: 
what is it and how does it work? Int J Methods Psychiatr Res 2011;20:40-9.