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
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.
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 |