{"owner": "ArrayExpress Uploader", "pop_total": 0, "species": "human", "factors": [{"GSM1178865": {"PATIENT": "21", "TREATMENT": "pegIFNalpha-2a", "TIME": "B2 (144h after pegIFNalpha-2a injection)"}}, {"GSM1178864": {"PATIENT": "20", "TREATMENT": "pegIFNalpha-2a", "TIME": "B2 (144h after pegIFNalpha-2a injection)"}}, {"GSM1178863": {"PATIENT": "19", "TREATMENT": "pegIFNalpha-2a", "TIME": "B2 (144h after pegIFNalpha-2a injection)"}}, {"GSM1178862": {"PATIENT": "18", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (144h after pegIFNalpha-2b injection)"}}, {"GSM117886": {"PATIENT": "17", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (144h after pegIFNalpha-2b injection)"}}, {"GSM1178860": {"PATIENT": "16", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (144h after pegIFNalpha-2b injection)"}}, {"GSM1178859": {"PATIENT": "15", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (96h after pegIFNalpha-2b injection)"}}, {"GSM1178858": {"PATIENT": "14", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (96h after pegIFNalpha-2b injection)"}}, {"GSM1178857": {"PATIENT": "13", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (96h after pegIFNalpha-2b injection)"}}, {"GSM1178856": {"PATIENT": "12", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (48h after pegIFNalpha-2b injection)"}}, {"GSM1178855": {"PATIENT": "11", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (48h after pegIFNalpha-2b injection)"}}, {"GSM1178854": {"PATIENT": "10", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (48h after pegIFNalpha-2b injection)"}}, {"GSM1178853": {"PATIENT": "9", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (16h after pegIFNalpha-2b injection)"}}, {"GSM1178852": {"PATIENT": "8", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (16h after pegIFNalpha-2b injection)"}}, {"GSM117885": {"PATIENT": "7", "TREATMENT": "pegIFNalpha-2b", "TIME": "B2 (16h after pegIFNalpha-2b injection)"}}, {"GSM1178844": {"PATIENT": "21", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178843": {"PATIENT": "20", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178842": {"PATIENT": "19", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM117884": {"PATIENT": "18", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178840": {"PATIENT": "17", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178839": {"PATIENT": "16", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178838": {"PATIENT": "15", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178837": {"PATIENT": "14", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178836": {"PATIENT": "13", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178835": {"PATIENT": "12", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178834": {"PATIENT": "11", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178833": {"PATIENT": "10", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178832": {"PATIENT": "9", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM117883": {"PATIENT": "8", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}, {"GSM1178830": {"PATIENT": "7", "TREATMENT": "control", "TIME": "B1 (before treatment)"}}], "id": 2129, "ownerprofile_id": "arrayexpress_sid", "platform": 4, "summary_wrapped": "This dataset is part of the paper: Pegylated interferon-\u03b1 regulates hepatic gene expression by transient activation of the Jak-STAT...", "geo_gse_id": "E-GEOD-48445", "owner_profile": "/profile/8773/arrayexpressuploader", "factor_count": 3, "sample_count": 30, "tags": ["chronic hepatitis c", "hepatitis", "liver", "serum", "superior", "viral hepatitis"], "lastmodified": "Dec.12, 2014", "is_default": false, "geo_gds_id": "", "slug": "gene-expression-profiling-of-liver-biopsies-from-2", "geo_id_plat": "E-GEOD-48445_A-AFFY-44", "name": "Gene expression profiling of liver biopsies from 21 chronic hepatitis C patients undergoing antiviral therapy", "created": "Jul.11, 2014", "summary": "This dataset is part of the paper: Pegylated interferon-\u03b1 regulates hepatic gene expression by transient activation of the Jak-STAT pathway; Dill MT et al; Journal of Clinical Investigation; in review Pegylated interferon-\u03b1 (pegIFN-\u03b1) has replaced un-modified recombinant IFN-\u03b1 for the treatment of chronic viral hepatitis because of its superior anti-viral efficacy that is generally attributed to improved pharmacokinetic properties. However, the pharmacodynamic effects of pegIFN-\u03b1 in the liver have not been studied. We analyzed pegIFN-\u03b1 induced signaling and gene regulation in paired liver biopsies obtained before treatment and during the first week after injection of pegIFN-\u03b1 in 18 patients. Despite sustained high serum concentrations of pegIFN-\u03b1 over the entire one-week dosing interval, IFN-\u03b1 signaling through the Jak-STAT pathway occurs only during the first day. PegIFN-\u03b1 induces hundreds of genes that can be classified into 4 clusters based on different temporal expression profiles. In all clusters, gene transcription is mainly driven by IFN stimulated gene factor 3 (ISGF3). IFN induced secondary transcription factors do not cause additional waves of gene expression. We could not confirm a role of un-phosphorylated STAT1 in prolonging IFN-\u03b1 induced gene transcription. Collectively, our results reveal that the major effects of pegIFN-\u03b1 in the liver are caused by an early and transient activation of ISGF3. Prolonging the serum half-life of IFN-\u03b1 does not necessarily improve its pharmacodynamic properties. Paired liver biopsy samples were collected before and during the first week of pegylated interferon alpha treatment of 21 chronic hepatitis C patients.  Total: 21 patients and 42 samples.", "source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-48445", "sample_source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-48445/samples/"}