{"platform": 6, "owner": "ArrayExpress Uploader", "ownerprofile_id": "arrayexpress_sid", "species": "mouse", "factors": [{"GSM45650": {"TISSUE": "n/a", "CELL TYPE": "cortical thymocyte", "CELL PHENOTYPE": "CD3-/lo AND CD45+ AND (CD90+ OR CD117+)"}}, {"GSM45650": {"TISSUE": "n/a", "CELL TYPE": "cortical thymocyte", "CELL PHENOTYPE": "CD3-/lo AND CD45+ AND (CD90+ OR CD117+)"}}, {"GSM45650": {"TISSUE": "n/a", "CELL TYPE": "cortical thymocyte", "CELL PHENOTYPE": "CD3-/lo AND CD45+ AND (CD90+ OR CD117+)"}}, {"GSM45650": {"TISSUE": "n/a", "CELL TYPE": "cortical thymocyte", "CELL PHENOTYPE": "CD3-/lo AND CD45+ AND (CD90+ OR CD117+)"}}, {"GSM45650": {"TISSUE": "n/a", "CELL TYPE": "cortical thymocyte", "CELL PHENOTYPE": "CD3-/lo AND CD45+ AND (CD90+ OR CD117+)"}}, {"GSM456506": {"TISSUE": "n/a", "CELL TYPE": "medullary thymocyte", "CELL PHENOTYPE": "CD3hi AND CD45+"}}, {"GSM456506": {"TISSUE": "n/a", "CELL TYPE": "medullary thymocyte", "CELL PHENOTYPE": "CD3hi AND CD45+"}}, {"GSM456506": {"TISSUE": "n/a", "CELL TYPE": "medullary thymocyte", "CELL PHENOTYPE": "CD3hi AND CD45+"}}, {"GSM456506": {"TISSUE": "n/a", "CELL TYPE": "medullary thymocyte", "CELL PHENOTYPE": "CD3hi AND CD45+"}}, {"GSM456506": {"TISSUE": "n/a", "CELL TYPE": "medullary thymocyte", "CELL PHENOTYPE": "CD3hi AND CD45+"}}, {"GSM456512": {"TISSUE": "Sub-capsular cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456512": {"TISSUE": "Sub-capsular cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456512": {"TISSUE": "Sub-capsular cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456517": {"TISSUE": "Central cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456517": {"TISSUE": "Central cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456517": {"TISSUE": "Central cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45652": {"TISSUE": "Peri-medullary cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45652": {"TISSUE": "Peri-medullary cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45652": {"TISSUE": "Peri-medullary cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456524": {"TISSUE": "Whole cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456524": {"TISSUE": "Whole cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456524": {"TISSUE": "Whole cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456524": {"TISSUE": "Whole cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456524": {"TISSUE": "Whole cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456524": {"TISSUE": "Whole cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM456524": {"TISSUE": "Whole cortex", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45653": {"TISSUE": "Whole medulla", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45653": {"TISSUE": "Whole medulla", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45653": {"TISSUE": "Whole medulla", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45653": {"TISSUE": "Whole medulla", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45653": {"TISSUE": "Whole medulla", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45653": {"TISSUE": "Whole medulla", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}, {"GSM45653": {"TISSUE": "Whole medulla", "CELL TYPE": "n/a", "CELL PHENOTYPE": "n/a"}}], "id": 5837, "pop_total": 0, "source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-18281", "summary_wrapped": "Interaction of hematopoietic progenitors with the thymic stromal microenvironment induces them to proliferate, adopt the T cell fate, and...", "pubmed_id": 20064453, "owner_profile": "/profile/8773/arrayexpressuploader", "factor_count": 3, "sample_count": 33, "tags": ["cell", "central", "cortex", "medulla", "thymus"], "lastmodified": "Dec.12, 2014", "is_default": false, "geo_gds_id": "", "slug": "spatial-mapping-of-thymic-stromal-microenvironment", "geo_id_plat": "E-GEOD-18281_A-AFFY-45", "name": "Spatial mapping of thymic stromal microenvironments reveals unique features influencing T lymphoid differentiation", "created": "Nov.11, 2014", "summary": "Interaction of hematopoietic progenitors with the thymic stromal microenvironment induces them to proliferate, adopt the T cell fate, and asymmetrically diverge into multiple T lineages. Progenitors at various developmental stages are stratified among different regions of the thymus, implying that the corresponding microenvironments differ from one another, and provide unique sets of signals to progenitors migrating between them. The nature of these differences remains undefined. Here we use novel physical and computational approaches to characterize these stromal subregions, distinguishing gene expression in microdissected tissues from that of their lymphoid constituents. Using this approach, we comprehensively map gene expression in functionally distinct stromal microenvironments, and identify clusters of genes that define each region. Quite unexpectedly, we find that the central cortex lacks distinctive features of its own, and instead appears to function by sequestering unique microenvironments found at the cortical extremities, and modulating the relative proximity of progenitors moving between them. 4 to 6 weeks old male C57bl6/J were used for microdissection of 3 thymic cortical subregions and thymic medulla or for sorting cortical and medullary thymocytes.  These samples were used for subsequent RNA purification, labeling and hybridization to Affymetrix arrays", "geo_gse_id": "E-GEOD-18281", "sample_source": "http://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-18281/samples/"}