ImmPort Data Release 29 Studies

January 2019

Study Program:

HLA2 UTHSC Studies of HLA Region Genomics in Systemic Sclerosis and Ankylosing Spondyilitis

Title:

UT_SSc

Accession:

SDY570

DOI:

10.21430/M3IJD4LQR5

Subjects:

997

Study PI, contact:

Xiaodong Zhou, University of Texas Health Science Center

Study Description:

HLA Genotyping

Publication(s):

Association of the HLA-DRB1 with scleroderma in Chinese population. PLoS One.September 3, 2014; https://doi.org/10.1371/journal.pone.0106939 [PLoS]

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
HLA Typing	997

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

NOVEL THERAPIES OF CHRONIC ALLOGRAFT DYSFUNCTION (CTOT-02)

Title:

Prevention of Cardiac Allograft Vasculopathy Using Rituximab (Rituxan) Therapy in Cardiac Transplantation

Accession:

SDY857

DOI:

10.21430/M33887D0YT

Subjects:

362

Study PI, contact:

Mohamed Sayegh, Brigham and Women's Hospital
Eva Harris, University of Michigan
Lionel Gresh, University of Michigan

Study Description:

This is a phase 2, prospective, multi-center, randomized, placebo-controlled clinical trial in which 300 primary heart transplant recipients with a negative PRA will be randomized (1:1) to placebo (IV day 0 and 12 post-transplant) plus conventional immunosuppression (tacrolimus or equivalent, MMF or equivalent, and rapid steroid taper) versus induction therapy with anti-CD20 mAb (1gm IV on day 0 and day 12 post-transplant) plus conventional immunosuppression

Publication(s):

None

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

Echocardiogram, Biopsy

Notes:

New Study

Study Program:

LaJolla Human Immune Signatures Dengue and Mycobacterium tuberculosis HIPC

Title:

Phenotyping and mRNA profiling of Zika virus-specific CD4 and CD8 T cells

Accession:

SDY903

DOI:

10.21430/M340DHRY4Y

Subjects:

Study PI, contact:

Daniela Weiskopf, La Jolla Institute for Allergy and Immunology

Study Description:

The human Immune Signature of Zika virus infection was studied in a Zika endemic area, Brazil. T cell responses were compared in acute infected patients as well as convalescent patients.

Publication(s):

None

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
HLA Typing	29
Flow Cytometry	72
Public Repository	60

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

Seattle Biomed HIPC Immune Profile and Network Analysis of Malaria Infection and Vaccination

Title:

Transcriptional responses induced by controlled human malaria infection (CHMI)

Accession:

SDY1092

DOI:

10.21430/M32AARFE8U

Subjects:

Study PI, contact:

Julian Rothen, Swiss Tropical and Public Health Institute & University of Basel

Study Description:

Whole blood RNA-Seq was applied to investigate gene expression kinetics in Tanzanian males who underwent controlled malaria infection by intradermal injection with aseptic, purified, cryopreserved Plasmodium falciparum sporozoites.

Publication(s):

Controlled human malaria infection of Tanzanians by intradermal injection of aseptic, purified, cryopreserved Plasmodium falciparum sporozoites. Am J Trop Med Hyg.10.4269/ajtmh.14-0119. Epub 2014 Jul 28. [PubMed]

Resources:

ClinicalTrials.gov [NCT01540903]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Public Repository	40

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

NONINVASIVE MARKERS AND TRANSPLANT OUTCOME IN HUMANS (CTOT-01, CTOT-05)

Title:

A Retrospective Multicenter Study to Determine 4-Year Clinical Outcomes in Subjects Previously Enrolled in the CTOT-05 Study

Accession:

SDY1095

DOI:

10.21430/M34I2CELSW

Subjects:

180

Study PI, contact:

Peter Heeger, Mount Sinai School of Medicine

Study Description:

This study is a multicenter, non-randomized, retrospective study to collect long term (4 years post-transplant) clinical outcome data on subjects previously enrolled in the CTOT-05 study.

Publication(s):

Early immune biomarkers and intermediate-term outcomes after heart transplant: Results of Clinical Trials in Organ Transplantation-18. Am J Transplant 2018 Dec 14. doi: 10.1111/ajt.15218 [PubMed]
Multicenter Analysis of Immune Biomarkers and Heart Transplant Outcomes: Results of the Clinical Trials in Organ Transplantation-05 Study. Am J Transplant 2016 Jan;16(1):121-36. doi: 10.1111/ajt.13422. Epub 2015 Aug 10 [PubMed]

Resources:

Clinical Trials [NCT02255123]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

Death, Graft Function

Notes:

New Study

Study Program:

Emory Systems Biological Analysis of Innate and Adaptive Responses to Vaccination HIPC

Title:

Systems Biology of 2011 trivalent Influenza vaccine (TIV) in young and elderly individuals, healthy or with T2D

Accession:

SDY1119

DOI:

10.21430/M3ZU72TO6V

Subjects:

Study PI, contact:

Bonnie Blomberg, UM Miller School of Medicine
Daniela Fraasca, UM Miller School of Medicine

Study Description:

Blood samples will be collected at days 0 (pre-vaccination) and 3,7,30,180 after vaccination, and used to Identify signatures of innate immunity, plasmablasts, lymphocytes and monocytes which correlate with antibody responses to the vaccine.

Publication(s):

Systems Analysis of Immunity to Influenza Vaccination across Multiple Years and in Diverse Populations Reveals Shared Molecular Signatures. Immunity 10.1016/j.immuni.2015.11.012 [PubMed]

Resources:

R01-AG032576-04 [R01-AG032576-04]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
HAI	468
Public Repository	177

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

HIPC Signatures Project

Title:

A Systems Vaccinology Approach Reveals Temporal Transcriptomic Changes of Immune Responses to the Yellow Fever 17D Vaccine.

Accession:

SDY1294

DOI:

10.21430/M3LT8WVHVH

Subjects:

Study PI, contact:

Yiming Shao, State Key Laboratory of Infectious Disease Prevention and Control

Study Description:

In this study, we used a systems vaccinology approach to identify temporal changes in immune response signatures to the yellow fever (YF)-17D vaccine, with the aim of comprehensively characterizing immune responses associated with protective immunity.

Publication(s):

A Systems Vaccinology Approach Reveals Temporal Transcriptomic Changes of Immune Responses to the Yellow Fever 17D Vaccine. Journal of Immunology [PubMed]

Resources:

NCBI GEO [GSE82152]
Publication [1476.long]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Public Repository	109

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

NK and Monocyte Interactions

Title:

TRNSPLNT UNIQ RSPNS TO NEEDS OF CHLDRN (CTOTC-02), VIRAL TRGRS - ALLOIMMUNITY & AUTOIMMUNITY IN PED LUNG TRNSPLNTN (CTOTC-03)

Accession:

SDY1295

DOI:

10.21430/M3VRZ0ZS5P

Subjects:

502

Study PI, contact:

Stuart Sweet, Washington University School of Medicine

Study Description:

This is a two part prospective, observational, multi-center cohort study of SOT recipients. The first part is a cross sectional comparison of perceived barriers to adherence to post-transplant immunosuppressant regimens in parents of children (0-11 years) versus adolescents (12-21 years). The second is a longitudinal study to evaluate whether perceived barriers to adherence increase with time during the first year following transplantation.

Publication(s):

Perceived barriers to medication adherence in pediatric and adolescent solid organ transplantation. Pediatr Transplant [PubMed]

Resources:

Clinical Trials [NCT01370746]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

NK and Monocyte Interactions

Title:

Profiling of NK cell ligands on moocytes infected with mock, A/California/07/2009 or A/Victoria/361/2011 virus

Accession:

SDY1371

DOI:

10.21430/M3KPGT3BYF

Subjects:

Study PI, contact:

Lisa Kronstad, Stanford University

Study Description:

Identify NK cell ligands regulated by influenza A virus infection using a monocyte-NK co-culture system and a Helios Mass cytometer. Two major ligands we found that contributed to the variance between the two strains were CD54 and CD112.

Publication(s):

Differential Induction of IFN-α and Modulation of CD112 and CD54 Expression Govern the Magnitude of NK Cell IFN-γ Response to Influenza A Viruses. J Immunol. [PubMed]

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
CTOF	107

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

Inner City Asthma Consortium (ICAC)

Title:

Mechanisms Underlying Asthma Exacerbations Prevented and Persistent With Immune-Based Therapy

Accession:

SDY1387

DOI:

10.21430/M3Q1C6388O

Subjects:

227

Study PI, contact:

Daniel Jackson, University of Wisconsin
Matthew Altman, University of Wisconsin

Study Description:

ICAC-29/MUPPITS-1 is a prospective, longitudinal, nested case-control study designed to identify changes in gene transcription predictive of and associated with asthma exacerbations in children ages 6 to 17 years with difficult-to-control, exacerbation-prone asthma. Participants will be followed prospectively for the onset of a cold and a subsequent asthma exacerbation. An internet-based asthma and cold symptom diary will be accessed by participants using a hand-held device. When the participant reports development of a cold, a clinic visit will be scheduled as soon as possible (within 48 hours of cold symptom onset) to collect blood and nasal samples. A second clinic visit will occur 4-6 days from the onset of cold symptoms to obtain samples after the initial cold, but prior to the use of systemic corticosteroids. Participants will be followed for up to two colds or approximately 6 months after Visit 0, whichever comes first.

Publication(s):

None

Resources:

Clinical Trials [NCT02502890]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

Columbia Tissue compartmentalization of human lymphocytes

Title:

Human lymph nodes maintain TCF-1hi memory T cells with high functional potential and clonal diversity throughout life

Accession:

SDY1389

DOI:

10.21430/M3NBGEA98C

Subjects:

Study PI, contact:

Donna Farber, Columbia University Medical Center

Study Description:

This study characterizes human memory T cells across multiple lymphoid and mucosal tissues from individual organ donors by transcriptional profling, high dimensional protein analysis on the single cell level by CyTOF, and T cell receptor repertoire profiling.

Publication(s):

Human Lymph Nodes Maintain TCF-1hi Memory T Cells with High Functional Potential and Clonal Diversity throughout Life. J Immunol 2018 Oct 1;201(7):2132-2140. doi: 10.4049/jimmunol.1800716. Epub 2018 Aug 15. [PubMed]

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Flow Cytometry	348
CyTOF	15
RNA Sequencing	12

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:	MSSM Dengue Human Immunology Project Consortium (DHIPC)
Title:	CRISPR-Cas9 Genome Engineering of Primary CD4+ T Cells for the Interrogation of HIV-host factor Interactions.
Accession:	SDY1390
DOI:	10.21430/M3R9N6OS6C
Subjects:	0
Study PI, contact:	Ann Duerr, HVTN Core Operations Judd Hultquist, Gladstone Institutes
Study Description:	A detailed, peer-reviewed protocol published in Nature Protocols for optimizing CRISPR-Cas9 editing pipelines to primary cell types. A detailed example is provided for editing primary CD4+ T cells to identify HIV host factors.
Publication(s):	None
Resources:	None
Assays in ImmPort:	None
Clinical Assessments in ImmPort:	None
Notes:	New Study

Study Program:

March of Dimes Human Microbiome

Title:

Lack of detection of a human placenta microbiome in samples from preterm and term deliveries

Accession:

SDY1401

DOI:

10.21430/M3BCUKEU3X

Subjects:

Study PI, contact:

Frederic Bushman, University of Pennsylvania School of Medicine

Study Description:

Historically the human womb has been thought to be sterile in healthy pregnancies, but this idea has been challenged by recent studies using DNA sequence-based methods, which have suggested that the womb is colonized with bacteria. For example, analysis of DNA from placenta samples yielded small proportions of microbial sequences, which were proposed to represent normal bacterial colonization. However, an analysis by our group showed no distinction between background negative controls and placenta samples.

Publication(s):

None

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Public Repository	461

Clinical Assessments in ImmPort:

Medical History

Notes:

New Study

Study Program:

Integrated Approach To Host-Pathogen Interactions

Title:

MaHPIC Experiments E23, E24, E25: M. mulatta infected with P. cynomolgi B strain and P. cynomolgi strain ceylonensis in homologous and heterologous challenges to measure acute primary infection and relapses

Accession:

SDY1409

DOI:

10.21430/M3TSYO4T3L

Subjects:

Study PI, contact:

Tracey Lamb, Emory University
Rabindra Tirouvaniziam, Emory University
Monica Cabrera, Emory University
Jeremy DeBarry, Emory University
Mary Galinski, Emory University
Jay Humphrey, Emory University
Ebru Karpuzoglu, Emory University
Jessica Kissinger, Emory University
Regina Joice, Emory University
Chet Joyner, Emory University
Esmeralda Meyer, Emory University
Alberto Moreno, Emory University
Vishal Nayak, Emory University
Mustafa Nural, Emory University
Suman Pakala, Emory University
Celia Saney, Emory University
Stephanie Soderberg, Emory University
F. Eun-Hyung Lee, Emory University

Study Description:

MaHPIC Experiments E23, E24, E25: M. mulatta infected with P. cynomolgi B strain and P. cynomolgi strain ceylonensis in homologous and heterologous challenges to produce and integrate clinical, hematological, parasitological, and omics measures of acute primary malaria infection and relapses in non-human primates

Publication(s):

None

Resources:

MaHPIC Project Website Emory
MaHPIC Data Website MaHPIC

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Cytometric Bead Array	82
ELISA	1117
MBAA	82
FCM	2108

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

Integrated Approach To Host-Pathogen Interactions

Title:

MaHPIC: Experiment 03 - Macaca mulatta infected with Plasmodium coatneyi Hackeri strain to produce and integrate clinical, hematological, parasitological, and omics measures of acute, recrudescent, and chronic infections

Accession:

SDY1411

DOI:

10.21430/M3J2FJIVPW

Subjects:

Study PI, contact:

Study Description:

Publication(s):

None

Resources:

MaHPIC Project Website Emory
MaHPIC Data Website MaHPIC

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Flow Cytometry	530

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

March of Dimes Human Microbiome

Title:

Multiomics modeling of the immunome, transcriptome, microbiome, proteome and metabolome adaptations during human pregnancy

Accession:

SDY1418

DOI:

10.21430/M3J2FJIVPW

Subjects:

Study PI, contact:

Martin Angst, Stanford University School of Medicine
Brice Gaudilliere, Stanford University School of Medicine
Nima Aghaeepour, Stanford University School of Medicine

Study Description:

Biological mechanisms produce immunologic, metabolomic, proteomic, genomic and microbiomic adaptations during the course of pregnancy.

Publication(s):

Multiomics modeling of the immunome, transcriptome, microbiome, proteome and metabolome adaptations during human pregnancy Bioinformatics 2019 Jan 1;35(1):95-103. doi: 10.1093/bioinformatics/bty537. [PubMed]

Resources:

Multiomics Modeling of the Immunome, Transcriptome, Microbiome, Proteome, and Metabolome Adaptations During Pregnancy Nalab

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

Integrated Approach To Host-Pathogen Interactions

Title:

MaHPIC: Experiment 15: Aotus nancymaae infected with P. vivax Brazil VII to produce clinical and omics measures of primary infections and relapses.

Accession:

SDY1424

DOI:

10.21430/M32LN9GIBL

Subjects:

Study PI, contact:

Tracey Lamb, Emory University
Cristiana Brito, Emory University
Monica Cabrera, Emory University
Jeremy DeBarry, Emory University
Mary Galinski, Emory University
Jay Humphrey, Emory University
Jessica Kissinger, Emory University
Chester Joyner, Emory University
John Barnwell, Emory University
Mustafa Nural, Emory University
Suman Pakala, Emory University
Celia Saney, Emory University
Stephanie Soderberg, Emory University

Study Description:

MaHPIC: Experiment 15: Aotus nancymaae infected with P. vivax Brazil VII to produce clinical and omics measures of primary infections and relapses.

Publication(s):

None

Resources:

MaHPIC Project Website Emory
MaHPIC Data Website MaHPIC

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Flow Cytometry	135

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

NONINVASIVE MARKERS AND TRANSPLANT OUTCOME IN HUMANS (CTOT-01, CTOT-05)

Title:

Optimization of NULOJIX (Belatacept) Usage as a Means of Avoiding CNI and Steroids in Renal Transplantation

Accession:

SDY1425

DOI:

10.21430/M3W0NBNCXA

Subjects:

Study PI, contact:

Christian Larsen, Emory University

Study Description:

Dialysis or kidney transplant are the two ways to treat kidney failure. Transplant recipients have to take anti-rejection medications to prevent their immune system (the body's natural defense system against illness) from rejecting their new kidney. Most patients who undergo a kidney transplant must take these anti-rejection medications for the rest of their lives. Taking standard anti-rejection medications for a long time can cause serious side effects, including kidney damage. There would be a benefit to finding new anti-rejection medications that work just as well, but don't damage the kidney.

Publication(s):

Lessons Learned: Early Termination of a Randomized Trial of Calcineurin Inhibitor and Corticosteroid Avoidance Using Belatacept. Am J Transplant 2017 Oct;17(10):2712-2719. doi: 10.1111/ajt.14377. Epub 2017 Jul 3 [PubMed]

Resources:

Clinical Trials Clinical Trials

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

Berkeley Protective Immunity Following Dengue Virus Natural Infections and Vaccination

Title:

Prior dengue virus infection and risk of Zika: a pediatric cohort in Nicaragua

Accession:

SDY1426

DOI:

10.21430/M3IBGBX9JO

Subjects:

Study PI, contact:

Aubree Gordon, University of Michigan
Eva Harris, University of Michigan
Lionel Gresh, University of Michigan

Study Description:

To study the potential impact of previous exposure to dengue virus on Zika virus (ZIKV) infection outcome, we analyzed the 2016 Zika epidemic in Managua, Nicaragua, in a pediatric cohort with well-characterized dengue virus (DENV) immune histories.

Publication(s):

None

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

None

Notes:

New Study

Study Program:

University of Rochester Center for Biodefense Immune Modeling

Title:

Immune Responses to Seasonal TIV 2010-2011 Influenza Vaccination in Humans (see companion study SDY396,SDY564)

Accession:

SDY224

DOI:

10.21430/M37KMO7JLW

Subjects:

Study PI, contact:

Martin Zand, University of Rochester Medical Center
Hulin Wu, University of Rochester Medical Center

Study Description:

High-frequency sampling combined with systems biology analysis of human peripheral blood cells following influenza vaccination was used to investigate T cell and B cell responses. Functional principal component analysis was used to examine time varying B cell vaccine response highlighting a single subject-specific mathematical pattern explaining ninety percent of the transcriptome variation. In addtition, daily sampling and monitoring of the proliferation marker Ki-67, revealed influenza-specific CD4 T cells do respond to vaccination.

Publication(s):

Ki-67 expression reveals strong, transient influenza specific CD4 T cell responses after adult vaccination. Vaccine 2012 Jun 29;30(31):4581-4. doi: 10.1016/j.vaccine.2012.04.059. Epub 2012 Apr 30. [PubMed]
High-resolution temporal response patterns to influenza vaccine reveal a distinct human plasma cell gene signature. Sci Rep DOI:10.1038/srep02327 Scientific Reports

Resources:

Gene Expression Omnibus (GEO) [SRX259436]
Effect of influenza vaccination on PBMC and B cell gene expression profiles in healthy humans [GSE45764]
University of Rochester Center for Biodefense Immune Modeling https://cbim.urmc.rochester.edu/

Assays in ImmPort:

Assay Type	Number of Exp. Samples
FCM	560
ELISA	423
ELISPOT	120
Public Repository	110
HAI	543
Q-PCR	1548

Clinical Assessments in ImmPort:

None

Notes:

Updated Study

Study Program:

Yale Influenza HIPC

Title:

Immunologic and genomic signatures of influenza vaccine response - 2013 (see companion studies SDY63, SDY404, SDY400)

Accession:

SDY520

DOI:

10.21430/M3KVVHM735

Subjects:

Study PI, contact:

David Hafler, Yale

Study Description:

Project 1: Immunologic and genomic signatures of influenza vaccine response - year4 2013

Publication(s):

None

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
HAI	114
Public Repository	99

Clinical Assessments in ImmPort:

None

Notes:

Study updated

Study Program:

HIPC Signatures Project

Title:

High-dimensional assessment of B-cell responses to quadrivalent meningococcal conjugate and plain polysaccharide vaccine.

Accession:

SDY1325

DOI:

10.21430/M3Q1ZBWOG2

Subjects:

Study PI, contact:

Daniel O'Connor, University of Oxford

Study Description:

Background: Neisseria meningitidis is a globally important cause of meningitis and septicaemia. Twelve capsular groups of meningococci are known, and quadrivalent vaccines against four of these (A, C, W and Y) are available as plain-polysaccharide and protein-polysaccharide conjugate vaccines. Here we apply contemporary methods to describe B-cell responses to meningococcal polysaccharide and conjugate vaccines. Methods: Twenty adults were randomly assigned to receive either a meningococcal plain-polysaccharide or conjugate vaccine; one month later all received the conjugate vaccine. Blood samples were taken pre-vaccination and 7, 21 and 28 days after vaccination; B-cell responses were assessed by ELISpot, serum bactericidal assay, flow cytometry and gene expression microarray. Results: Seven days after an initial dose of either vaccine, a gene expression signature characteristic of plasmablasts was detectable. The frequency of newly generated plasma cells (CXCR3+HLA-DR+) and the expression of transcripts derived from IGKC and IGHG2 correlated with immunogenicity. Notably, using an independent dataset, the expression of glucosamine (N-acetyl)-6-sulfatase was found to reproducibly correlate with the magnitude of immune response. Transcriptomic and flow cytometric data revealed depletion of switched memory B cells following plain-polysaccharide vaccine.

Publication(s):

High-dimensional assessment of B-cell responses to quadrivalent meningococcal conjugate and plain polysaccharide vaccine. Genome Medicine 10.1186/s13073-017-0400-x Genome Medicine

Resources:

GEO GSE92884 [GSE92884]
PubMed Central [PMC5282650]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Public Repository	59
Virus Neutralization	108

Clinical Assessments in ImmPort:

None

Notes:

Study updated

Study Program:

LaJolla Human Immune Signatures Dengue and Mycobacterium tuberculosis HIPC

Title:

Human immune signatures of Dengue virus and Mycobacterium Tuberculosis exposure infection

Accession:

SDY820

DOI:

10.21430/M3D02NOSVH

Subjects:

Study PI, contact:

Bjoern Peters, LaJolla Institute for Allergy and Immunology

Study Description:

The human immune signature of latent Mycobacterium tuberculosis infected patients as well as BCG vaccinated and BCG non-vaccinated individuals was studied by flow cytometry

Publication(s):

Transcriptomic Analysis of CD4+ T Cells Reveals Novel Immune Signatures of Latent Tuberculosis. Journal of Immunology 2018 May 1;200(9):3283-3290. doi: 10.4049/jimmunol.1800118. Epub 2018 Mar 30. [PubMed]
An Integrated Workflow To Assess Technical and Biological Variability of Cell Population Frequencies in Human Peripheral Blood by Flow Cytometry. Journal of Immunology 2017 Feb 15;198(4):1748-1758. doi: 10.4049/jimmunol.1601750. Epub 2017 Jan 9. [PubMed]

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
HLA	60
FCM	60
Public Repository	85

Clinical Assessments in ImmPort:

None

Notes:

Study updated

Study Program:

HIPC Signatures Project

Title:

Yellow fever vaccine induces integrated multilineage and polyfunctional immune responses.

Accession:

SDY1289

DOI:

10.21430/M37CO9E6FQ

Subjects:

Study PI, contact:

Rafick-Pierre Sekaly, Department of Microbiology and Immunology McGill University

Study Description:

Correlates of immune-mediated protection to most viral and cancer vaccines are still unknown. This impedes the development of novel vaccines to incurable diseases such as HIV and cancer. In this study, we have used functional genomics and polychromatic flow cytometry to define the signature of the immune response to the yellow fever (YF) vaccine 17D (YF17D) in a cohort of 40 volunteers followed for up to 1 yr after vaccination. We show that immunization with YF17D leads to an integrated immune response that includes several effector arms of innate immunity, including complement, the inflammasome, and interferons, as well as adaptive immunity as shown by an early T cell response followed by a brisk and variable B cell response. Development of these responses is preceded, as demonstrated in three independent vaccination trials and in a novel in vitro system of primary immune responses (modular immune in vitro construct [MIMIC] system), by the coordinated up-regulation of transcripts for specific transcription factors, including STAT1, IRF7, and ETS2, which are upstream of the different effector arms of the immune response. These results clearly show that the immune response to a strong vaccine is preceded by coordinated induction of master transcription factors that lead to the development of a broad, polyfunctional, and persistent immune response that integrates all effector cells of the immune system. peripheral blood samples from human newborns

Publication(s):

Yellow fever vaccine induces integrated multilineage and polyfunctional immune responses. Journal Experimental Medicine 2008 Dec 22;205(13):3119-31. doi: 10.1084/jem.20082292. Epub 2008 Dec 1. [PubMed]

Resources:

NCBI GEO [GSE13699]
Publication Publication

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Virus Neutralization	160
Public Repository	142

Clinical Assessments in ImmPort:

None

Notes:

Study updated

Study Program:

HIPC Baylor Systems Biology Approach to Study Influenza Vaccine in Healthy and Hyporesponsive Humans

Title:

Systems Biology Analysis of the response to Licensed Hepatitis B Vaccine (Engerix-B) (see companion study SDY690)

Accession:

SDY89

DOI:

10.21430/M3AYWX8NOT

Subjects:

Study PI, contact:

Robert Coffman, Dynavax Technologies Corporation

Study Description:

This project will contribute to the overall vision and goals of this U19 by analyzing the role of adjuvants in the humoral response to hep B vaccination in healthy individuals.

Publication(s):

Immunogenicity and safety of an investigational hepatitis B vaccine with a Toll-like receptor 9 agonist adjuvant (HBsAg-1018) compared to a licensed hepatitis B vaccine in healthy adults 40-70 years of age. Vaccine 2013 Nov 4;31(46):5300-5. doi: 10.1016/j.vaccine.2013.05.068. Epub 2013 May 30. [PubMed]
Demonstration of safety and enhanced seroprotection against hepatitis B with investigational HBsAg-1018 ISS vaccine compared to a licensed hepatitis B vaccine.Vaccine 2012 Mar 30;30(16):2689-96. doi: 10.1016/j.vaccine.2012.02.001. Epub 2012 Feb 14. [PubMed]
Immunogenicity of an investigational hepatitis B vaccine with a toll-like receptor 9 agonist adjuvant (HBsAg-1018) compared with a licensed hepatitis B vaccine in subpopulations of healthy adults 18-70 years of age.Vaccine 2015 Jul 17;33(31):3614-8. doi: 10.1016/j.vaccine.2015.05.070. Epub 2015 Jun 9. [PubMed]

Resources:

None

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Virus Neutralization	147
Flow Cytometry	384
DNA Microarray	441

Clinical Assessments in ImmPort:

None

Notes:

Study updated

Study Program:

HIPC Baylor Systems Biology Approach to Study Influenza Vaccine in Healthy and Hyporesponsive Humans

Title:

Systems Biology Analysis of the response to Licensed Hepatitis B Vaccine (HEPLISAV) in Whole Blood (see companion studies SDY816 and SDY690)

Accession:

SDY299

DOI:

10.21430/M34QI37OT9

Subjects:

Study PI, contact:

Robert Coffman, Dynavax Technologies Corporation

Study Description:

This project will contribute to the overall vision and goals of this U19 by analyzing the role of adjuvants in the humoral response to hep B vaccination in healthy individuals.

Publication(s):

Resources:

Dr. Jennifer Lund's Lab Dr. Jennifer Lund's Lab

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Flow Cytometry	822

Clinical Assessments in ImmPort:

None

Notes:

Study updated

Study Program:

AMP RA/SLE

Title:

Identifying Novel Molecular Signatures and Pathways in Active RA for Targets of Therapy- AMP RA Network Study

Accession:

SDY998

DOI:

10.21430/M3KXJHSP4T

Subjects:

Study PI, contact:

Jennifer Anolik, Rochester
Vivian Bykerk, HSS
Larry Moreland, Pittsburg
Michael Holers, Colorado
Mandy McGeachy, Pittsburg
Jennifer Seifert, Colorado
Andrew Filer, UK Birmingham
Costantino Pitzalis, UK London
Peter Gregersen, Northwell
Gary Firestein, UCSD
David Boyle, UCSD
Holden Maecker, Stanford
Michael Brenner, Brigham
Rohit Gupta, Stanford
Mina Pichavant, Stanford
PJ Utz, Stanford
Jennifer Chi, NIH
Soumya Raychaudhuri, Brigham
Harris Perlman, Northwestern
Arthur Mendelin, Northwestern
Michael Weisman, Cedars Sinai

Study Description:

The primary goal for RA arthroplasty P1 studies are: To establish if molecular signatures and pathways identified using core AMP technologies differ between OA and RA in 20 RA surgical samples and 10 OA arthroplasty samples.

Publication(s):

None

Resources:

NIH AMP RA/SLE Program [NIH AMP RA/SLE Program]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Cytof	241
Public Repository	3742
RNA Sequencing	114
Microscopy	1

Clinical Assessments in ImmPort:

Medical History

Notes:

Study updated

Study Program:

Inner City Asthma Consortium (ICAC)

Title:

APIC

Accession:

SDY1025

DOI:

10.21430/M39SEUM79K

Subjects:

717

Study PI, contact:

Peter Gergen, NIAID DAIT
Samuel Arbes, Rho Federal Systems Division, Inc.
William Busse, University of Wisconsin-Madison
Jui Shah, NIAID DAIT
Steven Sigelman, NIAID DAIT

Study Description:

This study looks to define the phenotypic characteristics of Difficult-to-Treat asthma, among 650 children between the ages of 6 to 17 years, receiving one year of guidelines-based therapy for asthma and rhinitis/rhinosinusitis.

Publication(s):

Expression of Corticosteroid Regulated Genes By Peripheral Blood Mononuclear Cells in Children with Asthma. J Allergy Clinical Immunology 2018 Jul 27. pii: S0091-6749(18)31064-9. doi: 10.1016/j.jaci.2018.06.043 [PubMed]
Rhinitis in Children and Adolescents with Asthma: Ubiquitous, Difficult to Control, and Associated with Asthma Outcomes. J Allergy Clinical Immunology 2018 Sep 11. pii: S0091-6749(18)31282-X. doi: 10.1016/j.jaci.2018.07.041 [PubMed]

Resources:

Clinical Trials [NCT01383941]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

Indoor Allergens, Ipratropium Reversibility, Allergen Skin Test, Composite Asthma Severity Index, Rhinitis/Rhinosinusitis Diagnostic Questionnaire, Body Mass Index, Spirometry, Exhaled Nitric Oxide, Methacholine Challenge, Plesthymography, Perceived Stress Scale

Notes:

Study updated

Study Program:

Inner City Asthma Consortium (ICAC)

Title:

A Biomarker-Based Pilot Study of Cockroach Sublingual Immunotherapy in Cockroach Sensitive Children with Asthma and / or Perennial Allergic Rhinitis

Accession:

SDY1026

DOI:

10.21430/M3LVUFRQOA

Subjects:

Study PI, contact:

Peter Gergen, NIAID DAIT
Robert Wood, Johns Hopkins University School of Medicine
Jui Shah, NIAID DAIT

Study Description:

This study looks to compare two doses of glycerinated German cockroach allergenic extract versus placebo administered via the sublingual route in 99 children ages 5 to 17 years with perennial allergic rhinitis, asthma, or both. It is designed to study biomarkers of the immune response to allergen immunotherapy as well as the safety of this therapy.

Publication(s):

Development of cockroach immunotherapy by the Inner-City Asthma Consortium. J Allergy Clinical Immunology 2014 Mar;133(3):846-52.e6. doi: 10.1016/j.jaci.2013.08.047. Epub 2013 Nov 1 [PubMed]

Resources:

Clinical Trials [NCT01380327]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

None

Notes:

Study updated

Study Program:

Inner City Asthma Consortium (ICAC)

Title:

Epigenetics

Accession:

SDY1027

DOI:

10.21430/M3SXDBHQTS

Subjects:

200

Study PI, contact:

David Schwartz, National Jewish Health
Andrew Liu, National Jewish Health
Peter Gergen, NIAID DAIT
Herman Mitchell, Rho, Inc.
Kathy Thompson, NIAID DAIT

Study Description:

The study is designed to determine the relation between methylation of CpG motifs and asthma in children residing in the inner city.

Publication(s):

DNA methylation and childhood asthma in the inner city. J Allergy Clinical Immunology 2015 Jul;136(1):69-80. doi: 10.1016/j.jaci.2015.01.025. Epub 2015 Mar 11 [PubMed]

Resources:

Clinical Trials [NCT01382836]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
Public Repository	388

Clinical Assessments in ImmPort:

None

Notes:

Study updated

Study Program:

Inner City Asthma Consortium (ICAC)

Title:

Preventative Omalizumab or Step-up Therapy for Severe Fall Exacerbations

Accession:

SDY1028

DOI:

10.21430/M3HZZOS3Y5

Subjects:

513

Study PI, contact:

Stanley Szefler, National Jewish Health
Stephen Teach, Children's National Medical Center
Peter Gergen, NIAID DAIT
Jui Shah, NIAID DAIT
William Busse, University of Wisconsin-Madison
Samuel Arbes, Rho, Inc.
Kathy Thompson, NIAID DAIT

Study Description:

A three-armed prospective randomized double-blind placebo-controlled trial investigating the efficacy of standard care plus 4-5 months of treatment with (a) a boost of inhaled corticosteroid therapy Flovent Diskus (fluticasone) versus (b) Xolair(omalizumab) or (c) placebo Xolair (omalizumab) and placebo Flovent Diskus (fluticasone) in reducing the exacerbations during the fall season.

Publication(s):

Preseasonal treatment with either omalizumab or an inhaled corticosteroid boost to prevent fall asthma exacerbations. J Allergy Clinical Immunology https://doi.org/10.1016/j.jaci.2015.09.008 [jacionline]

Resources:

Clinical Trials [NCT01430403]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

Spirometry, Asthma Control Test, Childhood Asthma Control Test, Dust Sample Lab Results, Exhaled Nitric Oxide

Notes:

Study updated

Study Program:

Inner City Asthma Consortium (ICAC)

Title:

A Biomarker-Based Pilot Study of Cockroach Subcutaneous Immunotherapy in Cockroach Sensitive Adults with Asthma and / or Perennial Allergic Rhinitis

Accession:

SDY1029

DOI:

10.21430/M3XJ80W9FK

Subjects:

Study PI, contact:

Peter Gergen, NIAID DAIT
Robert Wood, Johns Hopkins University School of Medicine

Study Description:

This is an open label single site trial of German cockroach allergenic extract administered by subcutaneous injection in 10 adults ages 18 to 55 years with perennial allergic rhinitis, asthma, or both. It is designed to study biomarkers of the immune response to allergen immunotherapy as well as the safety of this therapy.

Publication(s):

Development of cockroach immunotherapy by the Inner-City Asthma Consortium. J Allergy Clinical Immunology 2014 Mar;133(3):846-52.e6. doi: 10.1016/j.jaci.2013.08.047. Epub 2013 Nov 1. [24184147]

Resources:

Clinical Trials [NCT01221285]

Assays in ImmPort:

Assay Type	Number of Exp. Samples
None	0

Clinical Assessments in ImmPort:

None

Notes:

Study updated