Virus Expression Database

GSE16363

Microarray Analysis of Lymphatic Tissue Reveals Stage-Specific, Gene-Expression Signatures in HIV-1 Infection

Submitted by qingsheng li (University of Minnesota, USA) on Jun 01 2009

Platform: microarray – [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array

Pubmed: 19596987, 21525393

Summary Untreated HIV-1 infection progresses through acute and asymptomatic stages to AIDS. While each of the three stages has well-known clinical, virologic and immunological characteristics, much less is known of the molecular mechanisms underlying each stage. Here we report lymphatic tissue microarray analyses revealing for the first time stage-specific patterns of gene expression during HIV-1 infection. We show that while there is a common set of key genes with altered expression throughout all stages, each stage has a unique gene-expression signature. The acute stage is most notably characterized by increased expression of hundreds of genes involved in immune activation, innate immune defenses (e.g.MDA-5, TLR-7 and -8, PKR, APOBEC3B, 3F, 3G), adaptive immunity, and in the pro-apoptotic Fas-Fas-L pathway. Yet, quite strikingly, the expression of nearly all acute-stage genes return to baseline levels in the asymptomatic stage, accompanying partial control of infection. In the AIDS stage, decreased expression of numerous genes involved in T cell signaling identifies genes contributing to T cell dysfunction. These common and stage-specific, gene-expression signatures provide new insights into the molecular mechanisms underlying the host response and the slow, natural course of HIV-1 infection.

52 Samples

ID Title Cell Type Timepoint Reported Virus Virus Species Exclusion Reason
GSM410750 AP760a lymph node  uninfected Uninfected
GSM410751 AP760b lymph node  uninfected Uninfected
GSM410752 CF630b lymph node  Asymptotic HIV Human immunodeficiency virus 1
GSM410753 CF630a lymph node  Asymptotic HIV Human immunodeficiency virus 1
GSM410754 DB720a lymph node  uninfected Uninfected
GSM410755 DB720b lymph node  uninfected Uninfected
GSM410756 DP240a lymph node  acute HIV Human immunodeficiency virus 1
GSM410757 DP240b lymph node  acute HIV Human immunodeficiency virus 1
GSM410758 DS350a lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410759 DS350b lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410760 GL380a lymph node  AIDS HIV Human immunodeficiency virus 1
GSM410761 GL380b lymph node  AIDS HIV Human immunodeficiency virus 1
GSM410762 JR310a lymph node  Asymptotic HIV Human immunodeficiency virus 1
GSM410763 JR310b lymph node  Asymptotic HIV Human immunodeficiency virus 1
GSM410764 JS300a lymph node  acute HIV Human immunodeficiency virus 1
GSM410765 JS300b lymph node  acute HIV Human immunodeficiency virus 1
GSM410766 JS42Na lymph node  uninfected Uninfected
GSM410767 JS42Nb lymph node  uninfected Uninfected
GSM410768 KS640c lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410769 KS640d lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410770 MH580a lymph node  acute HIV Human immunodeficiency virus 1
GSM410771 MH580b lymph node  acute HIV Human immunodeficiency virus 1
GSM410772 MS520a lymph node  uninfected Uninfected
GSM410773 MS520b lymph node  uninfected Uninfected
GSM410774 OB06Na lymph node  AIDS HIV Human immunodeficiency virus 1
GSM410775 OB06Nb lymph node  AIDS HIV Human immunodeficiency virus 1
GSM410776 PH290a lymph node  acute HIV Human immunodeficiency virus 1
GSM410777 PH290b lymph node  acute HIV Human immunodeficiency virus 1
GSM410778 PR890a lymph node  acute HIV Human immunodeficiency virus 1
GSM410779 PR890b lymph node  acute HIV Human immunodeficiency virus 1
GSM410780 RJ560a lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410781 RJ560b lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410782 RM08Na lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410783 RM08Nb lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410784 RR670a lymph node  uninfected Uninfected
GSM410785 RR670b lymph node  uninfected Uninfected
GSM410786 SU360a lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410787 SU360b lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410788 TH490a lymph node  acute HIV Human immunodeficiency virus 1
GSM410789 TH490b lymph node  acute HIV Human immunodeficiency virus 1
GSM410790 TK07Na lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410791 TK07Nb lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410792 TK620a lymph node  AIDS HIV Human immunodeficiency virus 1
GSM410793 TK620b lymph node  AIDS HIV Human immunodeficiency virus 1
GSM410794 TS350a lymph node  acute HIV Human immunodeficiency virus 1
GSM410795 VM270a lymph node  AIDS HIV Human immunodeficiency virus 1
GSM410796 VM270b lymph node  AIDS HIV Human immunodeficiency virus 1
GSM410797 WB550a lymph node  acute HIV Human immunodeficiency virus 1
GSM410798 WB550b lymph node  acute HIV Human immunodeficiency virus 1
GSM410799 WB910a lymph node  acute HIV Human immunodeficiency virus 1
GSM410800 WU590a lymph node  asymptotic HIV Human immunodeficiency virus 1
GSM410801 WU590b lymph node  asymptotic HIV Human immunodeficiency virus 1