Bioinformatics construction of the human cell surfaceome. Export

@article{citeulike:5790344, abstract = {Cell surface proteins are excellent targets for diagnostic and therapeutic interventions. By using bioinformatics tools, we generated a catalog of 3,702 transmembrane proteins located at the surface of human cells (human cell surfaceome). We explored the genetic diversity of the human cell surfaceome at different levels, including the distribution of polymorphisms, conservation among eukaryotic species, and patterns of gene expression. By integrating expression information from a variety of sources, we were able to identify surfaceome genes with a restricted expression in normal tissues and/or differential expression in tumors, important characteristics for putative tumor targets. A high-throughput and efficient quantitative real-time PCR approach was used to validate 593 surfaceome genes selected on the basis of their expression pattern in normal and tumor samples. A number of candidates were identified as potential diagnostic and therapeutic targets for colorectal tumors and glioblastoma. Several candidate genes were also identified as coding for cell surface cancer/testis antigens. The human cell surfaceome will serve as a reference for further studies aimed at characterizing tumor targets at the surface of human cells.}, author = {da Cunha, J. P. and Galante, P. A. and de Souza, J. E. and de Souza, R. F. and Carvalho, P. M. and Ohara, D. T. and Moura, R. P. and Oba-Shinja, S. M. and Marie, S. K. and Silva, W. A. and Perez, R. O. and Stransky, B. and Pieprzyk, M. and Moore, J. and Caballero, O. and Gama-Rodrigues, J. and Habr-Gama, A. and Kuo, W. P. and Simpson, A. J. and Camargo, A. A. and Old, Lloyd J. and de Souza, S. J.}, citeulike-article-id = {5790344}, citeulike-linkout-0 = {http://dx.doi.org/10.1073/pnas.0907939106}, citeulike-linkout-1 = {http://www.pnas.org/content/early/2009/09/14/0907939106.abstract}, citeulike-linkout-2 = {http://www.pnas.org/content/early/2009/09/14/0907939106.full.pdf}, citeulike-linkout-3 = {http://view.ncbi.nlm.nih.gov/pubmed/19805368}, citeulike-linkout-4 = {http://www.hubmed.org/display.cgi?uids=19805368}, day = {29}, doi = {10.1073/pnas.0907939106}, issn = {1091-6490}, journal = {Proceedings of the National Academy of Sciences of the United States of America}, keywords = {cell-surface-proteins, colon-cancer, colorectal-cancer, glioblastoma, glioma, membrane}, month = {September}, number = {39}, pages = {16752--16757}, posted-at = {2009-10-28 08:29:04}, priority = {2}, title = {Bioinformatics construction of the human cell surfaceome.}, url = {http://dx.doi.org/10.1073/pnas.0907939106}, volume = {106}, year = {2009} }

TY - JOUR ID - citeulike:5790344 L3 - citeulike-article-id:5790344 N2 - Cell surface proteins are excellent targets for diagnostic and therapeutic interventions. By using bioinformatics tools, we generated a catalog of 3,702 transmembrane proteins located at the surface of human cells (human cell surfaceome). We explored the genetic diversity of the human cell surfaceome at different levels, including the distribution of polymorphisms, conservation among eukaryotic species, and patterns of gene expression. By integrating expression information from a variety of sources, we were able to identify surfaceome genes with a restricted expression in normal tissues and/or differential expression in tumors, important characteristics for putative tumor targets. A high-throughput and efficient quantitative real-time PCR approach was used to validate 593 surfaceome genes selected on the basis of their expression pattern in normal and tumor samples. A number of candidates were identified as potential diagnostic and therapeutic targets for colorectal tumors and glioblastoma. Several candidate genes were also identified as coding for cell surface cancer/testis antigens. The human cell surfaceome will serve as a reference for further studies aimed at characterizing tumor targets at the surface of human cells. IS - 39 JF - Proceedings of the National Academy of Sciences of the United States of America SN - 1091-6490 EP - 16757 TI - Bioinformatics construction of the human cell surfaceome. VL - 106 SP - 16752 KW - cell-surface-proteins KW - colon-cancer KW - colorectal-cancer KW - glioblastoma KW - glioma KW - membrane AU - da Cunha, JP AU - Galante, PA AU - de Souza, JE AU - de Souza, RF AU - Carvalho, PM AU - Ohara, DT AU - Moura, RP AU - Oba-Shinja, SM AU - Marie, SK AU - Silva, WA AU - Perez, RO AU - Stransky, B AU - Pieprzyk, M AU - Moore, J AU - Caballero, O AU - Gama-Rodrigues, J AU - Habr-Gama, A AU - Kuo, WP AU - Simpson, AJ AU - Camargo, AA AU - Old, Lloyd AU - de Souza, SJ PY - 2009/09/29/ UR - http://dx.doi.org/10.1073/pnas.0907939106 ER -