{"owner": "ArrayExpress Uploader", "pop_total": 0, "id": 3291, "factors": [{"GSM407316": {"TRANSFECTION VECTOR": "shRNA expression vector against Luc"}}, {"GSM407316": {"TRANSFECTION VECTOR": "shRNA expression vector against Luc"}}, {"GSM407318": {"TRANSFECTION VECTOR": "shRNA expression vector against TAK1"}}, {"GSM407318": {"TRANSFECTION VECTOR": "shRNA expression vector against TAK1"}}], "ownerprofile_id": "arrayexpress_sid", "platform": 4, "summary_wrapped": "We previously reported that human T cell lymphotropic virus 1 (HTLV-1) Tax oncoprotein constitutively activates TAK1. Here, we...", "pubmed_id": 19955181, "geo_gse_id": "E-GEOD-16219", "owner_profile": "/profile/8773/arrayexpressuploader", "factor_count": 1, "sample_count": 4, "tags": ["cell", "cutaneous t cell lymphoma", "genome", "hand", "lymphoma", "viral infection"], "lastmodified": "Dec.12, 2014", "is_default": false, "geo_gds_id": "", "slug": "identification-of-genes-that-are-regulated-by-tak1", "geo_id_plat": "E-GEOD-16219_A-AFFY-44", "name": "Identification of genes that are regulated by TAK1 in human cutaneous T cell lymphoma HuT-102 cells", "created": "Sep.12, 2014", "summary": "We previously reported that human T cell lymphotropic virus 1 (HTLV-1) Tax oncoprotein constitutively activates TAK1. Here, we established Tax-positive HuT-102 cells stably downregulated TAK1 expression by short-hairpin RNA (HuT-shTAK1 cells), and investigated the physiological function of TAK1. Microarray analysis demonstrated that several interferon (IFN)-inducible genes including chemokines such as CXCL10 and CCL5 were significantly downregulated in HuT-shTAK1 cells. In contrast, Tax-mediated constitutive activation of NF-kB was intact in HuT-shTAK1 cells. IRF3, a critical transcription factor in innate immunity to viral infection, was constitutively activated in a Tax-dependent manner. Activation of IRF3 and IRF3-dependent gene expression were dependent on TAK1 and TBK1. On the other hand, IRF4, another IRF family of transcription factor overexpressed in a Tax-independent manner, negatively regulated the TAK1-dependent IRF3 transcriptional activity. Together, HTLV-1 manipulates IFN signaling by regulating both positive and negative IRFs. HuT-102 cells, a human cutaneous T cell lymphoma, were stably transfected with shRNA expression vectors against human MAP3K7 (TAK1) or firefly luciferase (Luc). The cells were maintained in media containing 0.5 mg/ml G418. For the experiment, the cells were incubated in media without G418 for 36 h at 37\u00b0C. Total RNA samples were prepared from the cells. Gene expression was analyzed by an Affymetrix GeneChip\u00ae system with a Human Genome U133-plus 2.0 array for analysis of over 47,000 transcripts. Sample preparation for array hybridization was carried out as described in the manufacturer\u2019s instructions. Two replicates per sample type.", "source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-16219", "species": "human", "sample_source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-16219/samples/"}