{"owner": "ArrayExpress Uploader", "pop_total": 0, "id": 3298, "factors": [{"GSE16363GSM410750": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 28, "SEX": "Female", "INDIVIDUAL": 1476, "DISEASE STATE": "control", "ETHNICITY": "Hispanic", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 704 cells/ml"}}, {"GSE16363GSM410750": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 28, "SEX": "Female", "INDIVIDUAL": 1476, "DISEASE STATE": "control", "ETHNICITY": "Hispanic", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 704 cells/ml"}}, {"GSE16363GSM410752": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 27200 copies/ml", "AGE": 23, "SEX": "Male", "INDIVIDUAL": 1463, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 259 cells/ml"}}, {"GSE16363GSM410752": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 27200 copies/ml", "AGE": 23, "SEX": "Male", "INDIVIDUAL": 1463, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 259 cells/ml"}}, {"GSE16363GSM410754": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 52, "SEX": "Female", "INDIVIDUAL": 1472, "DISEASE STATE": "control", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 837 cells/ml"}}, {"GSE16363GSM410754": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 52, "SEX": "Female", "INDIVIDUAL": 1472, "DISEASE STATE": "control", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 837 cells/ml"}}, {"GSE16363GSM410756": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 14696 copies/ml", "AGE": 41, "SEX": "Male", "INDIVIDUAL": 1324, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 494 cells/ml"}}, {"GSE16363GSM410756": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 14696 copies/ml", "AGE": 41, "SEX": "Male", "INDIVIDUAL": 1324, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 494 cells/ml"}}, {"GSE16363GSM410758": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 15284 copies/ml", "AGE": 32, "SEX": "Male", "INDIVIDUAL": 1335, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 400 cells/ml"}}, {"GSE16363GSM410758": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 15284 copies/ml", "AGE": 32, "SEX": "Male", "INDIVIDUAL": 1335, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 400 cells/ml"}}, {"GSE16363GSM410760": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 4960 copies/ml", "AGE": 49, "SEX": "Male", "INDIVIDUAL": 1438, "DISEASE STATE": "AIDS", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 147 cells/ml"}}, {"GSE16363GSM410760": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 4960 copies/ml", "AGE": 49, "SEX": "Male", "INDIVIDUAL": 1438, "DISEASE STATE": "AIDS", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 147 cells/ml"}}, {"GSE16363GSM410762": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 71200 copies/ml", "AGE": 34, "SEX": "Male", "INDIVIDUAL": 1431, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 333 cells/ml"}}, {"GSE16363GSM410762": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 71200 copies/ml", "AGE": 34, "SEX": "Male", "INDIVIDUAL": 1431, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 333 cells/ml"}}, {"GSE16363GSM410764": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 3610 copies/ml", "AGE": 26, "SEX": "Male", "INDIVIDUAL": 1430, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 683 cells/ml"}}, {"GSE16363GSM410764": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 3610 copies/ml", "AGE": 26, "SEX": "Male", "INDIVIDUAL": 1430, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 683 cells/ml"}}, {"GSE16363GSM410766": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 45, "SEX": "Female", "INDIVIDUAL": 1442, "DISEASE STATE": "control", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 485 cells/ml"}}, {"GSE16363GSM410766": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 45, "SEX": "Female", "INDIVIDUAL": 1442, "DISEASE STATE": "control", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 485 cells/ml"}}, {"GSE16363GSM410768": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 122000 copies/ml", "AGE": 34, "SEX": "Male", "INDIVIDUAL": 1464, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 202 cells/ml"}}, {"GSE16363GSM410768": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 122000 copies/ml", "AGE": 34, "SEX": "Male", "INDIVIDUAL": 1464, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 202 cells/ml"}}, {"GSE16363GSM410770": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 439000 copies/ml", "AGE": 51, "SEX": "Male", "INDIVIDUAL": 1458, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 400 cells/ml"}}, {"GSE16363GSM410770": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 439000 copies/ml", "AGE": 51, "SEX": "Male", "INDIVIDUAL": 1458, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 400 cells/ml"}}, {"GSE16363GSM410772": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 40, "SEX": "Male", "INDIVIDUAL": 1452, "DISEASE STATE": "control", "ETHNICITY": "Hispanic", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 742 cells/ml"}}, {"GSE16363GSM410772": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 40, "SEX": "Male", "INDIVIDUAL": 1452, "DISEASE STATE": "control", "ETHNICITY": "Hispanic", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 742 cells/ml"}}, {"GSE16363GSM410774": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 10684 copies/ml", "AGE": 45, "SEX": "Male", "INDIVIDUAL": 1406, "DISEASE STATE": "AIDS", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 188 cells/ml"}}, {"GSE16363GSM410774": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 10684 copies/ml", "AGE": 45, "SEX": "Male", "INDIVIDUAL": 1406, "DISEASE STATE": "AIDS", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 188 cells/ml"}}, {"GSE16363GSM410776": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 484694 copies/ml", "AGE": 59, "SEX": "Male", "INDIVIDUAL": 1329, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 370 cells/ml"}}, {"GSE16363GSM410776": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 484694 copies/ml", "AGE": 59, "SEX": "Male", "INDIVIDUAL": 1329, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 370 cells/ml"}}, {"GSE16363GSM410778": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 32173 copies/ml", "AGE": 32, "SEX": "Male", "INDIVIDUAL": 1389, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 824 cells/ml"}}, {"GSE16363GSM410778": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 32173 copies/ml", "AGE": 32, "SEX": "Male", "INDIVIDUAL": 1389, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 824 cells/ml"}}, {"GSE16363GSM410780": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 174000 copies/ml", "AGE": 49, "SEX": "Male", "INDIVIDUAL": 1456, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 478 cells/ml"}}, {"GSE16363GSM410780": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 174000 copies/ml", "AGE": 49, "SEX": "Male", "INDIVIDUAL": 1456, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 478 cells/ml"}}, {"GSE16363GSM410782": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 20014 copies/ml", "AGE": 39, "SEX": "Male", "INDIVIDUAL": 1408, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 685 cells/ml"}}, {"GSE16363GSM410782": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 20014 copies/ml", "AGE": 39, "SEX": "Male", "INDIVIDUAL": 1408, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 685 cells/ml"}}, {"GSE16363GSM410784": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 26, "SEX": "Male", "INDIVIDUAL": 1467, "DISEASE STATE": "control", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 326 cells/ml"}}, {"GSE16363GSM410784": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: undetectable", "AGE": 26, "SEX": "Male", "INDIVIDUAL": 1467, "DISEASE STATE": "control", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 326 cells/ml"}}, {"GSE16363GSM410786": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 46400 copies/ml", "AGE": 63, "SEX": "Male", "INDIVIDUAL": 1436, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 248 cells/ml"}}, {"GSE16363GSM410786": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 46400 copies/ml", "AGE": 63, "SEX": "Male", "INDIVIDUAL": 1436, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 248 cells/ml"}}, {"GSE16363GSM410788": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: greater than 100 000 copies/ml", "AGE": 30, "SEX": "Male", "INDIVIDUAL": 1449, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 333 cells/ml"}}, {"GSE16363GSM410788": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: greater than 100 000 copies/ml", "AGE": 30, "SEX": "Male", "INDIVIDUAL": 1449, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 333 cells/ml"}}, {"GSE16363GSM410790": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 31922 copies/ml", "AGE": 35, "SEX": "Male", "INDIVIDUAL": 1407, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 372 cells/ml"}}, {"GSE16363GSM410790": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 31922 copies/ml", "AGE": 35, "SEX": "Male", "INDIVIDUAL": 1407, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 372 cells/ml"}}, {"GSE16363GSM410792": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 35000 copies/ml", "AGE": 43, "SEX": "Male", "INDIVIDUAL": 1462, "DISEASE STATE": "AIDS", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 81 cells/ml"}}, {"GSE16363GSM410792": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 35000 copies/ml", "AGE": 43, "SEX": "Male", "INDIVIDUAL": 1462, "DISEASE STATE": "AIDS", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 81 cells/ml"}}, {"GSE16363GSM410794": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: greater than 100 000 copies/ml", "AGE": 42, "SEX": "Male", "INDIVIDUAL": 1435, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 410 cells/ml"}}, {"GSE16363GSM410795": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 12046 copies/ml", "AGE": 40, "SEX": "Female", "INDIVIDUAL": 1327, "DISEASE STATE": "AIDS", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 112 cells/ml"}}, {"GSE16363GSM410795": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 12046 copies/ml", "AGE": 40, "SEX": "Female", "INDIVIDUAL": 1327, "DISEASE STATE": "AIDS", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 112 cells/ml"}}, {"GSE16363GSM410797": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 19400 copies/ml", "AGE": 23, "SEX": "Male", "INDIVIDUAL": 1455, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 209 cells/ml"}}, {"GSE16363GSM410797": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 19400 copies/ml", "AGE": 23, "SEX": "Male", "INDIVIDUAL": 1455, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 209 cells/ml"}}, {"GSE16363GSM410799": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: 24718 copies/ml", "AGE": 37, "SEX": "Male", "INDIVIDUAL": 1391, "DISEASE STATE": "acute HIV-1 infection", "ETHNICITY": "African American", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 414 cells/ml"}}, {"GSE16363GSM410800": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: greater than 100 000 copies/ml", "AGE": 36, "SEX": "Male", "INDIVIDUAL": 1459, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 286 cells/ml"}}, {"GSE16363GSM410800": {"CLINICAL INFORMATION": "plasma HIV-1 RNA level: greater than 100 000 copies/ml", "AGE": 36, "SEX": "Male", "INDIVIDUAL": 1459, "DISEASE STATE": "asymptomatic HIV-1 infection", "ETHNICITY": "Caucasian", "CLINICAL HISTORY": "Peripheral Blood CD4 positive T cell level: 286 cells/ml"}}], "ownerprofile_id": "arrayexpress_sid", "platform": 4, "summary_wrapped": "Untreated HIV-1 infection progresses through acute and asymptomatic stages to AIDS. While each of the three stages has well-known...", "pubmed_id": 19596987, "geo_gse_id": "E-GEOD-16363", "owner_profile": "/profile/8773/arrayexpressuploader", "factor_count": 7, "sample_count": 52, "tags": ["aids", "cell"], "lastmodified": "Dec.12, 2014", "is_default": false, "geo_id_plat": "E-GEOD-16363_A-AFFY-44", "slug": "transcription-profiling-by-array-of-human-lymphati", "geo_gds_id": "", "name": "Transcription profiling by array of human lymphatic tissue from HIV-1 infected individuals", "created": "Sep.12, 2014", "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. Experiment Overall Design: A total of 52 patients were analyzed: 10 patients unaffected, 18 patients with asymptomatic stages of AIDs, 16 patients with acute stages of AIDs, and 8 patients with AIDs.", "source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-16363", "species": "human", "sample_source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-16363/samples/"}