Cooperative Centers for Human Immunology (CCHI)

Welcome to the Cooperative Centers for Human Immunology integrative genomics portal. This portal provides CCHI participants with a site to browse, store, analyze and share data from the CCHI project.


Funded by the CCHI project.


My Studies

test :  (Gene expression, Sample annotation).
Analysis of Jurkat T-cells depleted for the LEDGF/p75 transcription factor. LEDGF/p75 is involved in targeting HIV DNA integration. Results provide insight into the mechanisms controlling HIV integration..

fontentot rudensky tregs :  (Gene expression, Sample annotation).
GSM44979 CD4+ CD25- Foxp3- T cells GSM44980 CD4+ CD25hi Foxp3+ T cells GSM44981 CD4+ CD25lo Foxp3+ T cells GSM44982 CD4+ CD25+ Foxp3- T cells.

ImmGen Naive vs. Effector CD8 :  (Gene expression, Sample annotation).
ImmGen expression of Naive CD8 vs Effector CD8 (OT-1 infected with VSVova at different days 5-15 of infection).

CFS_Ji2 :  (Gene expression, Sample annotation).
this is a testing analysis.

fix for U95 :  (Gene expression, Sample annotation).
adding chip file for u95av2 test.

Sarkar - KLRG-1 hi/lo - J. Ex Med 2008 :  (Gene expression, Sample annotation).
From GEO "Using killer cell lectin-like receptor G1 as a marker to distinguish terminal effector cells from memory precursors, we found that despite their diverse cell fates both subsets possessed remarkably similar gene expression profiles and functioned as equally potent killer cells. However, only the memory precursors were capable of making IL-2 thus defining a novel effector cell that was cytotoxic, expressed granzyme B, and produced inflammatory cytokines in addition to IL-2. This effector population then differentiated into long-lived protective memory T cells capable of self-renewal and rapid re-call responses. Mechanistic studies showed that cells that continued to receive antigenic stimulation during the later stages of infection were more likely to become terminal effectors. Importantly, curtailing antigenic stimulation towards the tail-end of the acute infection enhanced the generation of memory cells.".

TL West - Acute and Chronic LCMV - Immunity 2011 :  (Gene expression, Sample annotation).
From GEO: "Understanding the response of memory CD8 T cells to persistent antigen re-stimulation and the role of CD4 T cell help is critical to the design of successful vaccines for chronic diseases. However, studies comparing the protective abilities and qualities of memory and naive cells have been mostly performed in acute infections, and little is known about their roles during chronic infections. Herein, we show that memory cells dominate over naive cells and are protective when present in large enough numbers to quickly reduce infection. In contrast, when infection is not rapidly reduced, memory cells are quickly lost, unlike naive cells. This loss of memory cells is due to (i) an early block in cell proliferation, (ii) selective regulation by the inhibitory receptor 2B4, and (iii) increased reliance on CD4 T cell help. These findings have important implications towards the design of T cell vaccines against chronic infections and tumors.".

West - Acute and Chronic LCMV - Immunity 2011 :  (Gene expression, Sample annotation).
From GEO: "Understanding the response of memory CD8 T cells to persistent antigen re-stimulation and the role of CD4 T cell help is critical to the design of successful vaccines for chronic diseases. However, studies comparing the protective abilities and qualities of memory and naive cells have been mostly performed in acute infections, and little is known about their roles during chronic infections. Herein, we show that memory cells dominate over naive cells and are protective when present in large enough numbers to quickly reduce infection. In contrast, when infection is not rapidly reduced, memory cells are quickly lost, unlike naive cells. This loss of memory cells is due to (i) an early block in cell proliferation, (ii) selective regulation by the inhibitory receptor 2B4, and (iii) increased reliance on CD4 T cell help. These findings have important implications towards the design of T cell vaccines against chronic infections and tumors.".

Joshi et al MPEC/SLEC data Immunity 2007 :  (Gene expression, Sample annotation).
From GEO "t the peak of the CD8 T cell response to acture viral and bacterial infections, expression of the Interleukin-7 Receptor (IL-7R) marks Memory Precursor Effector CD8 T Cells (MPECs) from other Short-Lived Effector CD8 T cells (SLECs), which are IL-7Rlo. This study was designed to determine the gene expression differences between these two subsets of effector CD8 T cells. Keywords: expression comparison".


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News / Events


Recent Publications

Human Immune Responses to H. pylori HLA Class II Epitopes Identified by Immunoinformatic Methods. Zhang S, Desrosiers J, Aponte-Pieras JR, Dasilva K, Fast LD, Terry F, Martin WD, De Groot AS, Moise L, Moss SF


Poor Adherence to AASLD Guidelines for Chronic Hepatitis B Management and Treatment in a Large Academic Medical Center.Wu Y, Johnson KB, Roccaro G, Lopez J, Zheng H, Muiru A, Ufere N, Rajbhandari R, Kattan O, Chung RT


SnapShot: Cancer Vaccines.Palucka K, Banchereau J


RNA Sequencing and Proteogenomics Reveal the Importance of Leaderless mRNAs in the Radiation-tolerant Bacterium Deinococcus deserti.de Groot A, Roche D, Fernandez B, Ludanyi M, Cruveiller S, Pignol D, Vallenet D, Armengaud J, Blanchard L


Peptide-pulsed dendritic cells induce the hepatitis C viral epitope-specific responses of naïve human T cells.Mishra S, Losikoff PT, Self AA, Terry F, Ardito MT, Tassone R, Martin WD, De Groot AS, Gregory SH


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