A meta-analysis of human embryonic stem cells transcriptome integrated into a web-based expression atlas. Export

@article{citeulike:6102993, abstract = {Microarray technology provides a unique opportunity to examine gene expression patterns in human embryonic stem cells (hESCs). We performed a meta-analysis of 38 original studies reporting on the transcriptome of hESCs. We determined that 1,076 genes were found to be overexpressed in hESCs by at least three studies when compared to differentiated cell types, thus composing a "consensus hESC gene list." Only one gene was reported by all studies: the homeodomain transcription factor POU5F1/OCT3/4. The list comprised other genes critical for pluripotency such as the transcription factors NANOG and SOX2, and the growth factors TDGF1/CRIPTO and Galanin. We show that CD24 and SEMA6A, two cell surface protein-coding genes from the top of the consensus hESC gene list, display a strong and specific membrane protein expression on hESCs. Moreover, CD24 labeling permits the purification by flow cytometry of hESCs cocultured on human fibroblasts. The consensus hESC gene list also included the FZD7 WNT receptor, the G protein-coupled receptor GPR19, and the HELLS helicase, which could play an important role in hESCs biology. Conversely, we identified 783 genes downregulated in hESCs and reported in at least three studies. This "consensus differentiation gene list" included the IL6ST/GP130 LIF receptor. We created an online hESC expression atlas, http://amazonia.montp.inserm.fr, to provide an easy access to this public transcriptome dataset. Expression histograms comparing hESCs to a broad collection of fetal and adult tissues can be retrieved with this web tool for more than 15,000 genes.}, author = {Assou, Said and Le Carrour, Tanguy and Tondeur, Sylvie and Str\"{o}m, Susanne and Gabelle, Audrey and Marty, Sophie and Nadal, Laure and Pantesco, V\'{e}ronique and R\'{e}me, Thierry and Hugnot, Jean-Philippe P. and Gasca, St\'{e}phan and Hovatta, Outi and Hamamah, Samir and Klein, Bernard and De Vos, John}, citeulike-article-id = {6102993}, citeulike-linkout-0 = {http://dx.doi.org/10.1634/stemcells.2006-0352}, citeulike-linkout-1 = {http://view.ncbi.nlm.nih.gov/pubmed/17204602}, citeulike-linkout-2 = {http://www.hubmed.org/display.cgi?uids=17204602}, doi = {10.1634/stemcells.2006-0352}, issn = {1066-5099}, journal = {Stem cells (Dayton, Ohio)}, keywords = {embryonic, expression, human, meta\_analysis, microarray, stem\_cell, webserver}, month = {April}, number = {4}, pages = {961--973}, posted-at = {2009-11-12 18:23:44}, priority = {2}, title = {A meta-analysis of human embryonic stem cells transcriptome integrated into a web-based expression atlas.}, url = {http://dx.doi.org/10.1634/stemcells.2006-0352}, volume = {25}, year = {2007} }

TY - JOUR ID - citeulike:6102993 L3 - citeulike-article-id:6102993 N2 - Microarray technology provides a unique opportunity to examine gene expression patterns in human embryonic stem cells (hESCs). We performed a meta-analysis of 38 original studies reporting on the transcriptome of hESCs. We determined that 1,076 genes were found to be overexpressed in hESCs by at least three studies when compared to differentiated cell types, thus composing a "consensus hESC gene list." Only one gene was reported by all studies: the homeodomain transcription factor POU5F1/OCT3/4. The list comprised other genes critical for pluripotency such as the transcription factors NANOG and SOX2, and the growth factors TDGF1/CRIPTO and Galanin. We show that CD24 and SEMA6A, two cell surface protein-coding genes from the top of the consensus hESC gene list, display a strong and specific membrane protein expression on hESCs. Moreover, CD24 labeling permits the purification by flow cytometry of hESCs cocultured on human fibroblasts. The consensus hESC gene list also included the FZD7 WNT receptor, the G protein-coupled receptor GPR19, and the HELLS helicase, which could play an important role in hESCs biology. Conversely, we identified 783 genes downregulated in hESCs and reported in at least three studies. This "consensus differentiation gene list" included the IL6ST/GP130 LIF receptor. We created an online hESC expression atlas, http://amazonia.montp.inserm.fr, to provide an easy access to this public transcriptome dataset. Expression histograms comparing hESCs to a broad collection of fetal and adult tissues can be retrieved with this web tool for more than 15,000 genes. IS - 4 JF - Stem cells (Dayton, Ohio) SN - 1066-5099 EP - 973 TI - A meta-analysis of human embryonic stem cells transcriptome integrated into a web-based expression atlas. VL - 25 SP - 961 KW - embryonic KW - expression KW - human KW - meta_analysis KW - microarray KW - stem_cell KW - webserver AU - Assou, Said AU - Le Carrour, Tanguy AU - Tondeur, Sylvie AU - Ström, Susanne AU - Gabelle, Audrey AU - Marty, Sophie AU - Nadal, Laure AU - Pantesco, Véronique AU - Réme, Thierry AU - Hugnot, Jean-Philippe AU - Gasca, Stéphan AU - Hovatta, Outi AU - Hamamah, Samir AU - Klein, Bernard AU - De Vos, John PY - 2007/04// UR - http://dx.doi.org/10.1634/stemcells.2006-0352 ER -