Transcriptome-based systematic identification of extracellular matrix proteins Export

@article{citeulike:3183333, abstract = {10.1073/pnas.0803640105 Extracellular matrix (ECM), which provides critical scaffolds for all adhesive cells, regulates proliferation, differentiation, and apoptosis. Different cell types employ customized ECMs, which are thought to play important roles in the generation of so-called niches that contribute to cell-specific functions. The molecular entities of these customized ECMs, however, have not been elucidated. Here, we describe a strategy for transcriptome-wide identification of ECM proteins based on computational screening of >60,000 full-length mouse cDNAs for secreted proteins, followed by functional assays. These assays screened the candidate proteins for ECM-assembling activities, interactions with other ECM molecules, modifications with glycosaminoglycans, and cell-adhesive activities, and were then complemented with immunohistochemical analysis. We identified 16 ECM proteins, of which seven were localized in basement membrane (BM) zones. The identification of these previously unknown BM proteins allowed us to construct a body map of BM proteins, which represents the comprehensive immunohistochemistry-based expression profiles of the tissue-specific customization of BMs.}, author = {Manabe, Ri-Ichiroh and Tsutsui, Ko and Yamada, Tomiko and Kimura, Mina and Nakano, Itsuko and Shimono, Chisei and Sanzen, Noriko and Furutani, Yutaka and Fukuda, Tomohiko and Oguri, Yasuko and Shimamoto, Keiko and Kiyozumi, Daiji and Sato, Yuya and Sado, Yoshikazu and Senoo, Haruki and Yamashina, Shohei and Fukuda, Shiro and Kawai, Jun and Sugiura, Nobuo and Kimata, Koji and Hayashizaki, Yoshihide and Sekiguchi, Kiyotoshi}, citeulike-article-id = {3183333}, citeulike-linkout-0 = {http://dx.doi.org/10.1073/pnas.0803640105}, citeulike-linkout-1 = {http://www.pnas.org/content/105/35/12849.abstract}, citeulike-linkout-2 = {http://www.pnas.org/content/105/35/12849.full.pdf}, citeulike-linkout-3 = {http://view.ncbi.nlm.nih.gov/pubmed/18757743}, citeulike-linkout-4 = {http://www.hubmed.org/display.cgi?uids=18757743}, day = {2}, doi = {10.1073/pnas.0803640105}, journal = {Proceedings of the National Academy of Sciences}, keywords = {assay, assembly, ecm, extracellular, matrix, protein, screening, transcriptome}, number = {35}, pages = {12849--12854}, posted-at = {2008-09-03 03:14:05}, priority = {2}, title = {Transcriptome-based systematic identification of extracellular matrix proteins}, url = {http://dx.doi.org/10.1073/pnas.0803640105}, volume = {105}, year = {2008} }

TY - JOUR ID - citeulike:3183333 L3 - citeulike-article-id:3183333 N2 - 10.1073/pnas.0803640105 Extracellular matrix (ECM), which provides critical scaffolds for all adhesive cells, regulates proliferation, differentiation, and apoptosis. Different cell types employ customized ECMs, which are thought to play important roles in the generation of so-called niches that contribute to cell-specific functions. The molecular entities of these customized ECMs, however, have not been elucidated. Here, we describe a strategy for transcriptome-wide identification of ECM proteins based on computational screening of >60,000 full-length mouse cDNAs for secreted proteins, followed by functional assays. These assays screened the candidate proteins for ECM-assembling activities, interactions with other ECM molecules, modifications with glycosaminoglycans, and cell-adhesive activities, and were then complemented with immunohistochemical analysis. We identified 16 ECM proteins, of which seven were localized in basement membrane (BM) zones. The identification of these previously unknown BM proteins allowed us to construct a body map of BM proteins, which represents the comprehensive immunohistochemistry-based expression profiles of the tissue-specific customization of BMs. IS - 35 JF - Proceedings of the National Academy of Sciences EP - 12854 TI - Transcriptome-based systematic identification of extracellular matrix proteins VL - 105 SP - 12849 KW - assay KW - assembly KW - ecm KW - extracellular KW - matrix KW - protein KW - screening KW - transcriptome AU - Manabe, Ri-Ichiroh AU - Tsutsui, Ko AU - Yamada, Tomiko AU - Kimura, Mina AU - Nakano, Itsuko AU - Shimono, Chisei AU - Sanzen, Noriko AU - Furutani, Yutaka AU - Fukuda, Tomohiko AU - Oguri, Yasuko AU - Shimamoto, Keiko AU - Kiyozumi, Daiji AU - Sato, Yuya AU - Sado, Yoshikazu AU - Senoo, Haruki AU - Yamashina, Shohei AU - Fukuda, Shiro AU - Kawai, Jun AU - Sugiura, Nobuo AU - Kimata, Koji AU - Hayashizaki, Yoshihide AU - Sekiguchi, Kiyotoshi PY - 2008//02/ UR - http://dx.doi.org/10.1073/pnas.0803640105 ER -