ArrayExpress Uploader03298plasma HIV-1 RNA level: undetectable28Female1476controlHispanicPeripheral Blood CD4 positive T cell level: 704 cells/mlplasma HIV-1 RNA level: undetectable28Female1476controlHispanicPeripheral Blood CD4 positive T cell level: 704 cells/mlplasma HIV-1 RNA level: 27200 copies/ml23Male1463asymptomatic HIV-1 infectionAfrican AmericanPeripheral Blood CD4 positive T cell level: 259 cells/mlplasma HIV-1 RNA level: 27200 copies/ml23Male1463asymptomatic HIV-1 infectionAfrican AmericanPeripheral Blood CD4 positive T cell level: 259 cells/mlplasma HIV-1 RNA level: undetectable52Female1472controlCaucasianPeripheral Blood CD4 positive T cell level: 837 cells/mlplasma HIV-1 RNA level: undetectable52Female1472controlCaucasianPeripheral Blood CD4 positive T cell level: 837 cells/mlplasma HIV-1 RNA level: 14696 copies/ml41Male1324acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 494 cells/mlplasma HIV-1 RNA level: 14696 copies/ml41Male1324acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 494 cells/mlplasma HIV-1 RNA level: 15284 copies/ml32Male1335asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 400 cells/mlplasma HIV-1 RNA level: 15284 copies/ml32Male1335asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 400 cells/mlplasma HIV-1 RNA level: 4960 copies/ml49Male1438AIDSCaucasianPeripheral Blood CD4 positive T cell level: 147 cells/mlplasma HIV-1 RNA level: 4960 copies/ml49Male1438AIDSCaucasianPeripheral Blood CD4 positive T cell level: 147 cells/mlplasma HIV-1 RNA level: 71200 copies/ml34Male1431asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 333 cells/mlplasma HIV-1 RNA level: 71200 copies/ml34Male1431asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 333 cells/mlplasma HIV-1 RNA level: 3610 copies/ml26Male1430acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 683 cells/mlplasma HIV-1 RNA level: 3610 copies/ml26Male1430acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 683 cells/mlplasma HIV-1 RNA level: undetectable45Female1442controlCaucasianPeripheral Blood CD4 positive T cell level: 485 cells/mlplasma HIV-1 RNA level: undetectable45Female1442controlCaucasianPeripheral Blood CD4 positive T cell level: 485 cells/mlplasma HIV-1 RNA level: 122000 copies/ml34Male1464asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 202 cells/mlplasma HIV-1 RNA level: 122000 copies/ml34Male1464asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 202 cells/mlplasma HIV-1 RNA level: 439000 copies/ml51Male1458acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 400 cells/mlplasma HIV-1 RNA level: 439000 copies/ml51Male1458acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 400 cells/mlplasma HIV-1 RNA level: undetectable40Male1452controlHispanicPeripheral Blood CD4 positive T cell level: 742 cells/mlplasma HIV-1 RNA level: undetectable40Male1452controlHispanicPeripheral Blood CD4 positive T cell level: 742 cells/mlplasma HIV-1 RNA level: 10684 copies/ml45Male1406AIDSAfrican AmericanPeripheral Blood CD4 positive T cell level: 188 cells/mlplasma HIV-1 RNA level: 10684 copies/ml45Male1406AIDSAfrican AmericanPeripheral Blood CD4 positive T cell level: 188 cells/mlplasma HIV-1 RNA level: 484694 copies/ml59Male1329acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 370 cells/mlplasma HIV-1 RNA level: 484694 copies/ml59Male1329acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 370 cells/mlplasma HIV-1 RNA level: 32173 copies/ml32Male1389acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 824 cells/mlplasma HIV-1 RNA level: 32173 copies/ml32Male1389acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 824 cells/mlplasma HIV-1 RNA level: 174000 copies/ml49Male1456asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 478 cells/mlplasma HIV-1 RNA level: 174000 copies/ml49Male1456asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 478 cells/mlplasma HIV-1 RNA level: 20014 copies/ml39Male1408asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 685 cells/mlplasma HIV-1 RNA level: 20014 copies/ml39Male1408asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 685 cells/mlplasma HIV-1 RNA level: undetectable26Male1467controlCaucasianPeripheral Blood CD4 positive T cell level: 326 cells/mlplasma HIV-1 RNA level: undetectable26Male1467controlCaucasianPeripheral Blood CD4 positive T cell level: 326 cells/mlplasma HIV-1 RNA level: 46400 copies/ml63Male1436asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 248 cells/mlplasma HIV-1 RNA level: 46400 copies/ml63Male1436asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 248 cells/mlplasma HIV-1 RNA level: greater than 100 000 copies/ml30Male1449acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 333 cells/mlplasma HIV-1 RNA level: greater than 100 000 copies/ml30Male1449acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 333 cells/mlplasma HIV-1 RNA level: 31922 copies/ml35Male1407asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 372 cells/mlplasma HIV-1 RNA level: 31922 copies/ml35Male1407asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 372 cells/mlplasma HIV-1 RNA level: 35000 copies/ml43Male1462AIDSCaucasianPeripheral Blood CD4 positive T cell level: 81 cells/mlplasma HIV-1 RNA level: 35000 copies/ml43Male1462AIDSCaucasianPeripheral Blood CD4 positive T cell level: 81 cells/mlplasma HIV-1 RNA level: greater than 100 000 copies/ml42Male1435acute HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 410 cells/mlplasma HIV-1 RNA level: 12046 copies/ml40Female1327AIDSAfrican AmericanPeripheral Blood CD4 positive T cell level: 112 cells/mlplasma HIV-1 RNA level: 12046 copies/ml40Female1327AIDSAfrican AmericanPeripheral Blood CD4 positive T cell level: 112 cells/mlplasma HIV-1 RNA level: 19400 copies/ml23Male1455acute HIV-1 infectionAfrican AmericanPeripheral Blood CD4 positive T cell level: 209 cells/mlplasma HIV-1 RNA level: 19400 copies/ml23Male1455acute HIV-1 infectionAfrican AmericanPeripheral Blood CD4 positive T cell level: 209 cells/mlplasma HIV-1 RNA level: 24718 copies/ml37Male1391acute HIV-1 infectionAfrican AmericanPeripheral Blood CD4 positive T cell level: 414 cells/mlplasma HIV-1 RNA level: greater than 100 000 copies/ml36Male1459asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 286 cells/mlplasma HIV-1 RNA level: greater than 100 000 copies/ml36Male1459asymptomatic HIV-1 infectionCaucasianPeripheral Blood CD4 positive T cell level: 286 cells/mlarrayexpress_sid4Untreated HIV-1 infection progresses through acute and asymptomatic stages to AIDS. While each of the three stages has well-known...19596987E-GEOD-16363/profile/8773/arrayexpressuploader752aidscellDec.12, 2014FalseE-GEOD-16363_A-AFFY-44transcription-profiling-by-array-of-human-lymphatiTranscription profiling by array of human lymphatic tissue from HIV-1 infected individualsSep.12, 2014Untreated 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.http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-16363humanhttp://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-16363/samples/