DR9 DataRelease

Release Date: 04/08/2014

SDY61: Systems Biology of 2007 Influenza Vaccination in Humans (See companion studies SDY269 2008 / SDY270 2009 / SDY271 Role for CaMKIV in the Regulation of Antibody Responses to Influenza Vaccine)
Status:	Updated
Description:	Using a systems biology approach to study innate and adaptive responses to influenza vaccination in humans during the 2007-2008 influenza season.
Program/Contract:	Program Contract Human Immunology Project Consortium 1 (HIPC1) Systems Biological Analysis of Innate and Adaptive Responses to Vaccination NIAID Centers of Excellence for Influenza Research and Surveillance (CEIRS) Influenza Pathogenesis & Immunology Research Center (IPIRC)
DOI:	10.21430/M3FH0SA2W0
Subjects:	12
Study PI, contact:	Name Organization Site Bali Pulendran Emory Vaccine Center, Emory University Emory Vaccine Center
Publications:	Systems biology of vaccination for seasonal influenza in humans.. Nat Immunol. Jul 2011. doi: 10.1038/ni.2067. [Pubmed: 21743478] Systems Analysis of Immunity to Influenza Vaccination across Multiple Years and in Diverse Populations Reveals Shared Molecular Signatures.. Immunity. Dec 2015. doi: 10.1016/j.immuni.2015.11.012. [Pubmed: 26682988]
Resources:	Gene Expression Omnibus (GEO) http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE29614]
Assays:	Assay Type Number of Exp. Samples Flow Cytometry 4 Hemagglutination Inhibition 54 Q-PCR 27 Transcription profiling by array 27
Clinical Assessments:	None

SDY180: Systems scale interactive exploration reveals quantitative and qualitative differences in response to 2009-2010 Fluzone influenza vaccine and pneumococcal vaccine
Status:	Updated
Description:	Systems immunology approaches were employed to investigate innate and adaptive immune responses to influenza and pneumococcal vaccines. These two non-live vaccines show different magnitudes of transcriptional responses at different time points af- ter vaccination. Software solutions were developed to explore correlates of vaccine efficacy measured as antibody titers at day 28. These enabled a further dissection of transcriptional responses. Thus, the innate response, measured within hours in the peripheral blood, was dominated by an interferon transcriptional signature after influenza vaccination and by an inflammation signature after pneumo- coccal vaccination. Day 7 plasmablast responses induced by both vaccines was more pronounced after pneumococcal vaccination. Together, these results suggest that comparing global immune responses elicited by different vaccines will be critical to our understanding of the immune mechanisms underpinning successful vaccination.
Program/Contract:	Program Contract Human Immunology Project Consortium 1 (HIPC1) Systems Analysis Vaccine Responses in Healthy and Hyporesponsive Humans
DOI:	10.21430/M3I44H8R17
Subjects:	46
Study PI, contact:	Name Organization Site A. Karolina Palucka Baylor Reasearch Institute Baylor Reasearch Institute
Publications:	Systems scale interactive exploration reveals quantitative and qualitative differences in response to influenza and pneumococcal vaccines.. Immunity. Apr 2013. doi: 10.1016/j.immuni.2012.12.008. [Pubmed: 23601689]
Resources:	Gene Expression Omnibus (GEO) http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE30101]
Assays:	Assay Type Number of Exp. Samples DNA microarray 542 Flow Cytometry 2208 Hemagglutination Inhibition 66 Luminex xMAP 229 Nanostring 18 Transcription profiling by array 161 Virus Neutralization 89
Clinical Assessments:	None

SDY212: Apoptosis and other immune biomarkers predict influenza vaccine (TIV 2008) responsiveness
Status:	Updated
Description:	Despite the importance of the immune system in many diseases, there are currently no objective benchmarks of immunological health. In an effort to indentify benchmarks of immunological health, influenza vaccination was used in 30 young (20-30 years) and 59 older subjects (60 to 89 years) as models for strong and weak immune responses, respectively. Serological responses to influenza strains as well as a wide variety of other parameters, including gene expression, antibodies to hemagglutinin peptides, serum cytokines, cell subset phenotypes and in vitro cytokine stimulation were measured. Using machine learning, nine variables predicting antibody response with 84% accuracy were identified. Two of these variables are involved in apoptosis, which positively associated with the response to vaccination and was confirmed to be a contributor to vaccine responsiveness in mice. The identification of these biomarkers provides new insights into what immune features may be most important for immune health.
Program/Contract:	Program Contract Human Immunology Project Consortium 1 (HIPC1) Vaccination and infection: indicators of immunological health and responsiveness
DOI:	10.21430/M37NGTHMDS
Subjects:	91
Study PI, contact:	Name Organization Site Mark M. Davis Stanford University Stanford-LPCH Vaccine Program
Publications:	Apoptosis and other immune biomarkers predict influenza vaccine responsiveness.. Mol Syst Biol. Apr 2013. doi: 10.1038/msb.2013.15. [Pubmed: 23591775] Effects of aging, cytomegalovirus infection, and EBV infection on human B cell repertoires.. J Immunol. Jan 2014. doi: 10.4049/jimmunol.1301384. Epub 2013 Dec 11. [Pubmed: 24337376] Defective Signaling in the JAK-STAT Pathway Tracks with Chronic Inflammation and Cardiovascular Risk in Aging Humans.. Cell Syst. Oct 2016. doi: 10.1016/j.cels.2016.09.009. Epub 2016 Oct 13. [Pubmed: 27746093]
Resources:	Gene Expression Omnibus (GEO) http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE41080]
Assays:	Assay Type Number of Exp. Samples Flow Cytometry 1086 Hemagglutination Inhibition 534 Luminex xMAP 91 Protein microarray 91 Transcription profiling by array 91
Clinical Assessments:	None

SDY269: Systems Biology of 2008 Influenza Vaccination in Humans (See companion studies SDY61 2007 / SDY270 2009 / SDY271 Role for CaMKIV in the Regulation of Antibody Responses to Influenza Vaccine)
Status:	Updated
Description:	Using a systems biology approach to study innate and adaptive responses to influenza vaccination in humans during the 2008-2009 influenza season.
Program/Contract:	Program Contract Human Immunology Project Consortium 1 (HIPC1) Systems Biological Analysis of Innate and Adaptive Responses to Vaccination NIAID Centers of Excellence for Influenza Research and Surveillance (CEIRS) Influenza Pathogenesis & Immunology Research Center (IPIRC)
DOI:	10.21430/M3CDX6TL4I
Subjects:	63
Study PI, contact:	Name Organization Site Bali Pulendran Emory University Emory Vaccine Center,
Publications:	Systems biology of vaccination for seasonal influenza in humans.. Nat Immunol. Jul 2011. doi: 10.1038/ni.2067. [Pubmed: 21743478] Systems Analysis of Immunity to Influenza Vaccination across Multiple Years and in Diverse Populations Reveals Shared Molecular Signatures.. Immunity. Dec 2015. doi: 10.1016/j.immuni.2015.11.012. [Pubmed: 26682988]
Resources:	Emory Vaccine Center http://www.vaccines.emory.edu/] Gene Expression Omnibus (GEO) http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE29615] Gene Expression Omnibus (GEO) http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE29617]
Assays:	Assay Type Number of Exp. Samples ELISPOT 336 Flow Cytometry 59 Hemagglutination Inhibition 336 Luminex xMAP 168 Q-PCR 75 Transcription profiling by array 263
Clinical Assessments:	None

SDY270: Systems Biology of 2009 Influenza Vaccination in Humans (See companion studies SDY61 2007 / SDY269 2008 / SDY271 Role for CaMKIV in the Regulation of Antibody Responses to Influenza Vaccine)
Status:	Updated
Description:	Using a systems biology approach to study innate and adaptive responses to influenza vaccination in humans during the 2009-2010 influenza season.
Program/Contract:	Program Contract Human Immunology Project Consortium 1 (HIPC1) Systems Biological Analysis of Innate and Adaptive Responses to Vaccination NIAID Centers of Excellence for Influenza Research and Surveillance (CEIRS) Influenza Pathogenesis & Immunology Research Center (IPIRC)
DOI:	10.21430/M3H9N1SFLO
Subjects:	30
Study PI, contact:	Name Organization Site Bali Pulendran Emory University Emory Vaccine Center,
Publications:	Systems biology of vaccination for seasonal influenza in humans.. Nat Immunol. Jul 2011. doi: 10.1038/ni.2067. [Pubmed: 21743478] Systems Analysis of Immunity to Influenza Vaccination across Multiple Years and in Diverse Populations Reveals Shared Molecular Signatures.. Immunity. Dec 2015. doi: 10.1016/j.immuni.2015.11.012. [Pubmed: 26682988]
Resources:	Emory Vaccine Center http://www.vaccines.emory.edu/]
Assays:	Assay Type Number of Exp. Samples Hemagglutination Inhibition 168 Q-PCR 90 Transcription profiling by array 83
Clinical Assessments:	None