E-GEOD-3551 - Diversity, Topographic Differentiation, and Positional Memory in Human Fibroblasts

Status
Submitted on 2 November 2005, released on 2 November 2005, last updated on 18 October 2011
Organism
Homo sapiens
Samples (100)
Arrays (3)
Protocols (2)
Description
A fundamental feature of the architecture and functional design of vertebrate animals is a stroma, composed of extracellular matrix and mesenchymal cells, which provides a structural scaffold and conduit for blood and lymphatic vessels, nerves, and leukocytes. Reciprocal interactions between mesenchymal and epithelial cells are known to play a critical role in orchestrating the development and morphogenesis of tissues and organs, but the roles played by specific stromal cells in controlling the design and function of tissues remain poorly understood. The principal cells of stromal tissue are called fibroblasts, a catch-all designation that belies their diversity. We characterized genome-wide patterns of gene expression in cultured fetal and adult human fibroblasts derived from skin at different anatomical sites. Fibroblasts from each site displayed distinct and characteristic transcriptional patterns, suggesting that fibroblasts at different locations in the body should be considered distinct differentiated cell types. Notablegroups of differentially expressed genes included some implicated in extracellular matrixsynthesis, lipid metabolism, and cell signaling pathways that control proliferation, cellmigration, and fate determination. Several genes implicated in genetic diseases werefound to be expressed in fibroblasts in an anatomic pattern that paralleled the phenotypicdefects. Finally, adult fibroblasts maintained key features of Hox gene expressionpatterns established during embryogenesis, suggesting that Hox genes may directtopographic differentiation and underlie the detailed positional memory in fibroblasts. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc
Experiment type
unknown experiment type 
Contact
Citations
Diversity, topographic differentiation, and positional memory in human fibroblasts. Chang HY, Chi JT, Dudoit S, Bondre C, van de Rijn M, Botstein D, Brown PO.
Gene expression signature of fibroblast serum response predicts human cancer progression: similarities between tumors and wounds. Chang HY, Sneddon JB, Alizadeh AA, Sood R, West RB, Montgomery K, Chi JT, van de Rijn M, Botstein D, Brown PO.
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-3551.idf.txt
Sample and data relationshipE-GEOD-3551.sdrf.txt
Processed data (1)E-GEOD-3551.processed.1.zip
Array designsA-GEOD-1282.adf.txt, A-GEOD-3042.adf.txt, A-GEOD-3043.adf.txt
Links