{"owner": "ArrayExpress Uploader", "pop_total": 0, "species": "mouse", "factors": [{"GSM925103": {"ORGANISM PART": "normal lung tissue", "VARIATION": "wild type"}}, {"GSM925104": {"ORGANISM PART": "mixture tissue of lung SCC and tumor neighbor", "VARIATION": "KA/KA-Lori-Ikk\u03b1"}}, {"GSM925105": {"ORGANISM PART": "lung tissue with some inflammation and no tumor observed", "VARIATION": "KA/KA-Lori-Ikk\u03b1"}}], "id": 6867, "ownerprofile_id": "arrayexpress_sid", "platform": 6, "summary_wrapped": "We generated Ikk\u03b1-KA/KA knock-in mice (KA/KA), in which an ATP binding site of Ikk\u03b1 Lys 44 was replaced by alanine. The knock-in mice...", "geo_gse_id": "E-GEOD-37655", "owner_profile": "/profile/8773/arrayexpressuploader", "factor_count": 2, "sample_count": 3, "tags": ["alanine", "lung", "macrophage", "skin"], "lastmodified": "Dec.12, 2014", "is_default": false, "geo_id_plat": "E-GEOD-37655_A-AFFY-45", "slug": "gene-expression-alteration-by-macrophage-depletion", "geo_gds_id": "", "name": "Gene expression alteration by macrophage depletion in IKK\u03b1 mutant mice", "created": "Nov.12, 2014", "summary": "We generated Ikk\u03b1-KA/KA knock-in mice (KA/KA), in which an ATP binding site of Ikk\u03b1 Lys 44 was replaced by alanine. The knock-in mice develop severe skin lesions and begin to die after 6 to 10 months. We also found lung SCCs in some of the mice. To study lung SCC development, we stabilize the skin condition by crossing  KA/KA with Lori.Ikk\u03b1 transgenic mice to generate KA/KA-Lori.Ikk\u03b1 mice, which 100% spontaneously developed lethal lung SCC at 4 to 6 months of age. Clodronate-liposomes obtained from Dr. N. van Rooijen (Vrije Universiteit, Amsterdam, Netherlands) were intravenously injected into mice twice every week, started in 4 weeks old mice, and continued for 3 months. The dose of clodronate-liposomes was 100\u00b5l during the first month and elevated to 150 100\u00b5l after that. The depletion efficacy was confirmed by detecting pulmonary macrophages with Flow Cytometry. Depletion of macrophages in these KA/KA-Lori.Ikk\u03b1 mice could significantly reduce inflammation and prevent lung SCC developmrnt. This aim of this microarray assay is to identify differentially expressed genes among Wild type, KA/KA-Lori.Ikk\u03b1, and macophage-depleted KA/KA-Lori.Ikk\u03b1 mice, which may highlight the important genes or parthways involved in inflammation-associated lung SCC carcinogenesis. Three samples were analyzed: 1. WT (lung tissue from wild type mouse); 2. KA2 (mixture tissue of lung SCC and tumor neighbor from KA/KA-Lori-Ikk\u03b1 mouse ); 3. KAT (lung tissue from KA/KA-Lori-Ikk\u03b1 mouse with macrophage depletion treatment)", "source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-37655", "sample_source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-37655/samples/"}