Clinical trial NCT00258869: Observational Study of Sepsis and Pneumonia to Develop Diagnostic Tests
Official title: Plasma Protein Biomarker Based Diagnostics of Outcome in Sepsis & CAP
Study type: OBSERVATIONAL
Overall status: UNKNOWN
Conditions: Sepsis
Septicemia
Sepsis Syndrome
Shock, Septic
Community Acquired Pneumonia
Keywords: prospective studies
biological assay
body weights and measures
chemistry, analytical
microchip analytical procedures
spectrum analysis, mass
molecular diagnostic techniques
microbiological techniques
drug administration schedule
data collection
statistics
gene expression profiling
sequence analysis
human experimentation
immunoassay
Trauma severity indices
Glasgow Coma score
Outcome assessment
mortality
computer models
decision modeling
linear models
logistic models
immunologic model
mathematical model
non-linear models
early diagnosis
diagnosis, computer assisted
medical informatics
prognosis
registries
computational biology
systems biology
Lead sponsor: National Center for Genome Resources
Sponsor class: OTHER
Collaborators: name: National Institute of Allergy and Infectious Diseases (NIAID)
name: Duke University
name: Henry Ford Hospital
name: Durham VA Medical Center
name: Pfizer
name: Hoffmann-La Roche
First posted: 2005-11-28
Enrollment: 1200
Sex: ALL
Minimum age (years): 6
Standard ages: CHILD
ADULT
OLDER_ADULT
Accepts healthy volunteers: no
Observational model: COHORT
Time perspective: PROSPECTIVE
Sampling method: NON_PROBABILITY_SAMPLE
Study population: Emergency department patients \> 6 years of age

Brief summary: We propose to develop novel diagnostic tests for severe sepsis and community acquired pneumonia (CAP). This program, entitled Community Acquired Pneumonia \& Sepsis Outcome Diagnostics (CAPSOD), is a multidisciplinary collaboration involving investigators at six organizations: NCGR; Duke University Medical Center, Durham, NC; Henry Ford Hospital, Detroit, MI; Eli Lilly and Company, Indianapolis, IN; Indiana Centers for Applied Protein Sciences, Indianapolis, IN; and ProSanos Corp., La Jolla, CA.

In the United States, Community Acquired Pneumonia is the sixth leading cause of death and the number one cause of death from infectious diseases. Of the 5.6 million annual cases of CAP, 1.1 million require hospitalization for intensive therapy. Sepsis, commonly known as blood poisoning or bloodstream infection, is the tenth leading cause of death in the US and the number one cause of death in non-cardiac intensive care units. Incidence of sepsis is increasing by 9% each year and mortality rates vary between 25 and 50%. Cost to the US healthcare system exceeds $20 billion each year.

In patients with suspected sepsis or early CAP, rapid identification of patients who will develop severe sepsis or CAP is critical for effective management and positive outcome. The CAPSOD study is designed to identify novel tests for early diagnosis of severe sepsis and CAP. When performed in patients at the earliest stages of disease, these tests will have prognostic value, rapidly identifying those who will have poor outcomes or complicated courses.

CAPSOD will prospectively enroll patients with sepsis and CAP at Duke University Medical Center and Henry Ford Hospital. The study will use advanced bioinformatic, metabolomic, proteomic and mRNA sequencing technologies to identify specific protein changes, or biomarkers, in patient blood samples that predict outcome in sepsis and CAP. Development of biomarker-based tests will permit patient selection for appropriate disposition, such as the intensive care unit, and use of intensive medical therapies, thereby reducing mortality and increasing effectiveness of resource allocation.

Detailed description: 3 interdependent aims are proposed to discover and initiate development of novel, in vitro diagnostic tests (IVD) for severe sepsis (SS) and community acquired pneumonia (CAP).

Specific Aim 1: Discovery and initial development of an IVD for early diagnosis of severe sepsis.

In patients with suspected sepsis, early, accurate identification of patients who will develop organ dysfunction (SS) is critical for effective management and positive outcome. While the American College of Chest Physicians/Society of Critical Care Medicine Consensus Conference definitions provide a clinical guide to identifying patients who have SS, we propose to develop a rapid, point-of-care (POC) IVD for early diagnosis of SS. The basis of the proposed IVD will be the measurement of several, host response, plasma proteins. When performed in patients at the earliest stage of sepsis, this test will have prognostic value, rapidly identifying patients who will have poor outcomes or complicated courses.

Availability of this IVD will enable patient selection for appropriate disposition, such as the intensive care unit (ICU), and use of medical therapies, such as early goal-directed therapy (EGDT), thereby reducing mortality and increasing effectiveness of resource allocation. A considerable literature exists of host plasma protein changes during sepsis. Furthermore, in preliminary studies measuring more than 100 host proteins in blood of over 300 patients with SS, we have identified a number of candidate biomarkers of SS. We propose to inventory, replicate and validate the utility of these biomarkers of SS, and to identify novel plasma biomarkers of SS, through literature review and a prospective clinical study employing 2 proteomic technologies (mass spectrometry and multiplexed immunoassays), mass spectrometry-based plasma metabolomics and sequencing of mRNA derived from peripheral blood lymphocytes. We intend to enroll 1200 patients with sepsis (evidence of infection and 2 or more criteria of the systemic inflammatory response syndrome, SIRS) at 3 US tertiary care hospitals and emergency departments (ED), and to monitor their course both by established clinical severity indices (Acute Physiology and Chronic Health Evaluation \[APACHE II\] and Pneumonia Patient Outcomes Research Team \[PORT\]scores, and metabolic endpoints such as lactate, base deficit and pH) and ascertainment of complicating events (such as SS, septic shock, acute renal failure (ARF), acute respiratory distress syndrome (ARDS),disseminated intravascular coagulopathy (DIC) and death). It is anticipated that approximately 60% of the patients will develop SS.

Data will be stored in an anonymized, encrypted, web-based patient registry. Bivariable analyses will be performed to identify and validate biomarker differences between groups. Furthermore, we intend to perform predictive modeling using multivariable analyses of the validated biomarkers and derive a biomarker panel and algorithm for early diagnosis of SS. The predictive value of the biomarker panel for early diagnosis of SS will be compared with established prognostic indices, such as metabolic endpoints and APACHE II score. Novel biomarkers of severe CAP will be identified by mass spectrometry of patient EDTA plasma samples. Subject to availability of multiplexed immunoassays, some of these biomarkers will be replicated by immunoassay in the same samples.

During the period of award, a plan for IVD development of the biomarker panel for early diagnosis of SS will be developed. This is anticipated to involve assay optimization and transfer to an existing, validated IVD platform, FDA-regulated IVD development processes, and incorporation of the IVD into an intensive treatment algorithm. The proposed IVD will be an oligoplex assay performed on a single blood sample using immunoassays on an established diagnostic platform with time-to-first result of less than 30 minutes and capable of use in a POC setting, such as an ED or ICU.

Specific Aim 2: Biomarker development for early differentiation of poor outcome in CAP Complications of CAP, including respiratory failure, other organ system failure and severe sepsis, are major determinants of morbidity and mortality. At time of presentation with CAP, accurate identification of patients who will have a complicated course or poor outcome is critical for effective management and positive outcome. In parallel with Specific Aim 1, we propose to identify biomarkers for early diagnosis/prognosis of poor outcome in patients with CAP ("severe CAP"). The biomarkers will be several, host response, plasma proteins that differentiate mild and severe CAP. Early diagnosis of severe CAP will enable patient selection for hospitalization, thereby reducing mortality and increasing effectiveness of resource allocation.

It is anticipated that approximately 33% of the patients enrolled in the Specific Aim 1 clinical study (evidence of infection and two or more SIRS criteria) will have CAP as the underlying infection causing sepsis. Furthermore, it is anticipated that approximately 25% of these CAP patients will develop severe CAP. Specific aim 2 proposes a secondary, separate analysis of all patients enrolled in the Specific Aim 1 clinical study who have CAP in order to identify biomarkers for early diagnosis of severe CAP. We propose to inventory existing candidate biomarkers of severe CAP through literature review. Furthermore, we propose to validate the utility of some of these biomarkers, and to identify a number of novel biomarkers of severe CAP through analysis of the subset of patients in the prospective clinical study who have CAP and employing 2 proteomic technologies (mass spectrometry and multiplexed immunoassays), mass spectrometry-based plasma metabolomics and sequencing of mRNA derived from peripheral blood lymphocytes. Bivariable analyses will be performed to identify plasma biomarker differences between mild and severe CAP. Multivariable analyses will be performed in order to derive a plasma biomarker panel and algorithm for early diagnosis of severe CAP. The biomarker panel for early diagnosis of severe CAP will be compared with established prognostic indices, such as PORT score. Novel biomarkers of severe CAP will be identified by mass spectrometry of patient EDTA plasma samples.

Subject to availability of multiplexed immunoassays, some of these biomarkers will be replicated by immunoassay in the same samples.

During the period of award, a plan for panel validation and IVD development for early diagnosis of severe CAP will be developed. The latter is anticipated to involve assay optimization and transfer to an existing, validated IVD platform, FDA regulated IVD development processes, and incorporation of the IVD into an intensive treatment algorithm. The proposed IVD will be an oligoplex assay performed on a single blood sample using immunoassays on an established diagnostic platform with time-to-first result of less than 30 minutes and capable of use in a POC setting, such as an ED or ICU. This is anticipated to be a product line extension of the SS IVD.

Specific Aim 3: Biomarker development for early differentiation of sepsis and CAP pathogens Currently, initial antimicrobial treatment of sepsis and CAP is empiric. Common etiologic agents in sepsis are gram-positive bacteria (Staphylococcus spp. and Streptococcus spp.), gram-negative bacteria (e.g., Escherichia coli, Klebsiella spp., and Enterobacter spp.), and fungi (Candida spp.). Common etiologic agents in CAP are Streptococcus pneumoniae, Legionella pneumophila, Mycoplasma spp., and viruses. The ability to distinguish these pathogens at time of presentation of sepsis or CAP would potentially allow more targeted rather than broad-spectrum initial therapy. Earlier administration of appropriate antimicrobials would lower patient management cost associated with ineffective therapy and lessen likelihood of antibiotic resistance. We propose to identify host biomarkers for early differentiation of up to 4 common etiologic agents in sepsis and CAP. Our preliminary studies have established proof-of-concept for differentiation between classes of pathogens in sepsis based on specific differences in soluble host proteins in a blood sample. Based on our preliminary studies, it is anticipated that approximately 25% of patients in the Specific Aim 1 clinical study will have a positive blood culture. At least 33 of these patients are anticipated to have S. aureus bacteremia and 20 gram negative bacteremia. Specific Aim 3 proposes to compare plasma samples from patients with S. aureus and gram negative bacteremia in order to identify host biomarkers for early differentiation of specific class agent in sepsis. As in specific aims 1 and 2, bivariable and multivariable analyses of biomarkers is proposed to develop a biomarker panel for early differentiation of staphylococcal and gram-negative sepsis. Similar analysis is proposed to differentiate CAP pathogens. However, given the absence of a high-sensitivity, gold-standard method for determination of causal pathogen in CAP, Specific Aim 3 proposes the more conservative goal of differentiating pneumococcal CAP from atypical CAP based on quantitative differences in host blood biomarkers. The pneumococcal CAP group will be selected from the clinical studydataset based on rigorous criteria: S. pneumoniae from blood or sputum culture or detection of pneumococcal antigen in urine, clinical evidence of CAP and typical (lobar consolidation) chest radiograph. The nonpneumococcal CAP group will be determined by negative pneumococcal cultures and urine antigen, clinical evidence of CAP, and an atypical chest radiograph. It is anticipated that at least 20 patients (15% of the 133 with CAP) will have confirmed pneumococcal CAP and 40 patients (30%) atypical, non-pneumococcal CAP. Biomarkers for differentiation of i. S. aureus bacteremia from gram-negative bacteremia, and ii. pneumococcal CAP from atypical CAP, will be identified by mass spectrometry of patient EDTA plasma samples. Subject to availability of multiplexed immunoassays, some of these biomarkers will be replicated by immunoassay in the same samples. It should be noted that given budget-imposed reduction in patient enrollment of one third from that originally proposed, we are uncertain that sufficient patients will be enrolled for all Specific Aim 3 analyses to be meaningful. We propose to evaluate the group sizes of enrolled patients by specific class agent in order to select two specific comparisons between sepsis and CAP pathogens that are of sufficient size to permit meaningful analysis.

Validation and development of these biomarkers into biomarker panels and rapid, POC, IVD for early differentiation of pathogen in sepsis and CAP is intended, but is beyond the scope of the present proposal. A product line extension of the SS IVD is envisaged. Like the test for early diagnosis of SS, the IVD(s) for early differentiation of CAP and sepsis pathogens will be oligoplex assay(s) performed on single blood sample(s) using immunoassays or other analyte assays.

Eligibility criteria: Inclusion Criteria:

1. Patient has known or acute infection or suspected infection AND patient must meet at least 2 of the following 4 criteria to be enrolled

1. A core temperature of \>= 38°C (100.4°F) or \<= 36°C (96.8°F)
2. Patients \> 18 years of age, Heart rate of \>= 90 beats/min Patients 13-18 years of age, Heart rate of \>= 110 beats/min Patients 6-12 years of age, Heart rate of \>= 130 beats/min
3. Patients \> 18 years of age, Respiratory rate of \>= 20 breaths/min Patients 13-18 years of age, Respiratory rate of \>= 14 breaths/min Patients 6-12 years of age, Respiratory rate of \>= 18 breaths/min OR PaCO2 of \<= 32 mm Hg OR Use of Mechanical Ventilation for an acute respiratory process
4. Patients \> 18 years of age, White cell count \>= 12,000/mm3 or \<= 4,000/mm3 Patients 13-18 years of age, White cell count \>= 11,000/mm3 or \<= 4,500/mm3 Patients 6-12 years of age, White cell count \>= 13,500/mm3 or \<= 4,500/mm3 OR A differential count showing \> 10% immature neutrophils

Exclusion Criteria:

1. Patient is less than 6 years of age.
2. Patient is not expected to survive 28 days because of uncorrectable medical condition (apart from pneumonia or sepsis), such as poorly controlled neoplasm or other end-stage disease, or patient has active DNR order
3. Human immunodeficiency virus (HIV) infection with a last known CD4 count of \<50 mm3
4. Acute presence of a cerebral vascular event, active gastrointestinal hemorrhage, seizure (acute episode), drug overdose, burn injury, trauma
5. Patient is pregnant

Primary outcomes:
measure: Death
timeFrame: Day 3
measure: Septic Shock
timeFrame: Day 3
measure: Severe Sepsis
timeFrame: Day 3
Secondary outcomes:
measure: Time to death
timeFrame: 28 days
measure: Death
timeFrame: Day 5
measure: Death
timeFrame: Day 7
measure: Death
timeFrame: Day 28
measure: Time to severe sepsis
timeFrame: 28 days
measure: Severe sepsis
timeFrame: Day 5
measure: Severe sepsis
timeFrame: Day 7
measure: Severe sepsis
timeFrame: Day 28
measure: Time to septic shock
timeFrame: 28 days
measure: Septic Shock
timeFrame: Day 5
measure: Septic Shock
timeFrame: Day 7
measure: Septic shock
timeFrame: Day 28
measure: Cryptic shock (ScvO2<65 or Lactate >2.5 and MAP >65 mmHg [>18 years of age] or SBP >90 [<18 years of age])
timeFrame: Day 3
measure: Time to Cryptic shock (ScvO2<65 or Lactate >2.5 and MAP >65 mmHg [>18 years of age] or SBP >90 [<18 years of age])
timeFrame: Day 28
measure: Cryptic shock (ScvO2<65 or Lactate >2.5 and MAP >65 mmHg [>18 years of age] or SBP >90 [<18 years of age])
timeFrame: Day 5
measure: Cryptic shock (ScvO2<65 or Lactate >2.5 and MAP >65 mmHg [>18 years of age] or SBP >90 [<18 years of age])
timeFrame: Day 7
measure: Cryptic shock (ScvO2<65 or Lactate >2.5 and MAP >65 mmHg [>18 years of age] or SBP >90 [<18 years of age])
timeFrame: Day 28
measure: Hospitalization
timeFrame: 24 hours
measure: Length of hospital stay
timeFrame: Days
measure: ICU admission
timeFrame: 28 days
measure: Length of ICU admission
timeFrame: Days
measure: Disposition
timeFrame: 28 day
measure: Renal dysfunction
timeFrame: 28 days
measure: Respiratory dysfunction
timeFrame: 28 days
measure: Hematology dysfunction
timeFrame: 28 days
measure: Metabolic dysfunction
timeFrame: 28 days
measure: Renal SOFA score
timeFrame: 28 days
measure: Lung SOFA score
timeFrame: 28 days
measure: Coagulation SOFA score
timeFrame: 28 days
measure: Liver SOFA score
timeFrame: 28 days
measure: CVS SOFA score
timeFrame: 28 dadys
measure: Time to respiratory SOFA Score
timeFrame: 28 days
measure: Time to coagulation SOFA score
timeFrame: 28 days
measure: Time to liver SOFA score
timeFrame: 28 days
measure: Time to CVS SOFA score
timeFrame: 28 days
measure: Time to Renal SOFA score
timeFrame: 28 days
measure: DIC score >5 (modified ISTH scoring system)
timeFrame: 28 days
measure: Time to DIC score > 5
timeFrame: Days
measure: Development of ALI
timeFrame: 28 days
measure: Development of ARDS
timeFrame: 28 days
measure: Time to ALI
timeFrame: Days
measure: Time to ARDS
timeFrame: Days
measure: Ventilator
timeFrame: 28 days
measure: Ventilator days
timeFrame: Days
measure: MELD score
timeFrame: 28 days
measure: Effect of early goal directed therapy on primary and secondary end-points
timeFrame: 28 days
measure: Effect of Activated Protein C on primary and secondary end-points
timeFrame: 28 days
measure: Effect of stress-dose corticosteroids on primary and secondary end-points
timeFrame: 28 days
measure: Effect of intensive glycemic control on primary and secondary end-points
timeFrame: 28 days
measure: APACHE II score
timeFrame: enrollment
measure: APACHE II score
timeFrame: 24 hours
measure: PRISM III score
timeFrame: enrollment
measure: PRISM III score
timeFrame: 24 hours
measure: SOFA score
timeFrame: enrollment
measure: SOFA score
timeFrame: 24 hours
measure: CAP mortality
timeFrame: Day 3
measure: CAP and severe sepsis
timeFrame: Day 3
measure: CAP and septic shock
timeFrame: Day 3
measure: Severe CAP (ATS criteria)
timeFrame: Day 3
measure: Severe CAP (BTS criteria)
timeFrame: Day 3
measure: Pneumococcal sepsis
timeFrame: Day 7
measure: Staphylococcus aureus sepsis
timeFrame: Day 7
measure: Gram negative rod sepsis
timeFrame: Day 7
measure: Fungal sepsis
timeFrame: Day 7
measure: SeptiFast result
timeFrame: Enrollment
measure: SeptiFast result
timeFrame: 24 hours
measure: Microbiologic culture result
timeFrame: Day 28
measure: Urinary legionella antigen
timeFrame: 7 days
measure: Microbiologic culture
timeFrame: 7 days
measure: CAP, time to death
timeFrame: days
measure: CAP, mortality
timeFrame: Day 5
measure: CAP, mortality
timeFrame: Day 7
measure: CAP, mortality
timeFrame: Day 28
measure: CAP, time to severe sepsis
timeFrame: Days
measure: CAP, severe sepsis
timeFrame: Day 5
measure: CAP, severe sepsis
timeFrame: Day 7
measure: CAP, severe sepsis
timeFrame: Day 28
measure: CAP, time to septic shock
timeFrame: days
measure: CAP, septic shock
timeFrame: Day 5
measure: CAP, septic shock
timeFrame: Day 7
measure: CAP, septic shock
timeFrame: Day 28
measure: Time to severe CAP (ATS and BTS criteria)
timeFrame: Days
measure: Severe CAP (ATS and BTS criteria)
timeFrame: Day 5
measure: Severe CAP (ATS and BTS criteria)
timeFrame: Day 7
measure: Severe CAP (ATS and BTS criteria)
timeFrame: Day 28
measure: CAP, mechanical ventilation
timeFrame: 28 days
measure: CAP, time to mechanical ventilation
timeFrame: Days
measure: CAP, length of mechanical ventilation
timeFrame: Days
measure: CAP, SOFA respiratory score > 2
timeFrame: 28 days
measure: CAP, respiratory component of severe sepsis criteria
timeFrame: 28 days
measure: CAP, hospitalized
timeFrame: 24 hours
measure: CAP, length of hospitalization
timeFrame: Days
measure: CAP, ICU admission
timeFrame: 28 days
measure: CAP, length of ICU stay
timeFrame: Days
measure: CAP, Disposition
timeFrame: 28 days
measure: CAP, ALI
timeFrame: 28 days
measure: CAP, ARDS
timeFrame: 28 days
measure: CAP, time to ARDS
timeFrame: days
measure: CAP, time to ALI
timeFrame: Days
measure: CAP, PORT score
timeFrame: enrollment
measure: CAP, PORT score
timeFrame: 24 hours
Other outcomes:
Locations:
city: Detroit
country: United States
facility: Henry Ford Hospital
state: Michigan
city: Durham
country: United States
facility: Duke University Medical Center
state: North Carolina
city: Durham
country: United States
facility: Durham VA Medical Center
state: North Carolina
Study officials:
affiliation: National Center for Genome Resources
name: Stephen F Kingsmore, MB ChB BAO
role: PRINCIPAL_INVESTIGATOR
affiliation: Duke University
name: Vance Jr G Fowler, MD
role: STUDY_DIRECTOR
affiliation: Henry Ford Hospital
name: Emanuel P Rivers, MD
role: STUDY_DIRECTOR
affiliation: Duke University
name: Christopher W Woods, MD
role: STUDY_DIRECTOR
affiliation: Duke University
name: Ralph G Corey, MD
role: STUDY_DIRECTOR
affiliation: Henry Ford Hospital
name: Ronny Otero, MD
role: STUDY_DIRECTOR
affiliation: Eli Lilly and Company
name: Brian W Grinnell, PhD
role: STUDY_DIRECTOR
affiliation: Eli Lilly and Company
name: Brian T Edmonds, PhD
role: STUDY_DIRECTOR
affiliation: INCAPS
name: Mu Wang, PhD
role: STUDY_DIRECTOR
affiliation: INCAPS
name: James R Ludwig, PhD
role: STUDY_DIRECTOR
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