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Bioinformatics construction of the human cell surfaceome

da Cunha, J.P.C ; Galante, P.A.F ; de Souza, J.E ; de Souza, R.F ; Carvalho, P.M ; Ohara, D.T ; Moura, R.P ; Oba-Shinja, S.M ; Marie, S.K.N ; Silva, W.A. Jr ; Perez, R.O ; Stransky, B ; Pieprzyk, M ; Moore, J ; Caballero, O ; Gama-Rodrigues, J ; Habr-Gama, A ; Kuo, W.P ; Simpson, A.J ; Camargo, A.A ; Old, Lloyd J ; de Souza, S.J

Proceedings of the National Academy of Sciences - PNAS, 2009-09, Vol.106 (39), p.16752-16757 [Periódico revisado por pares]

United States: National Academy of Sciences

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Título:
Bioinformatics construction of the human cell surfaceome
Autor: da Cunha, J.P.C ; Galante, P.A.F ; de Souza, J.E ; de Souza, R.F ; Carvalho, P.M ; Ohara, D.T ; Moura, R.P ; Oba-Shinja, S.M ; Marie, S.K.N ; Silva, W.A. Jr ; Perez, R.O ; Stransky, B ; Pieprzyk, M ; Moore, J ; Caballero, O ; Gama-Rodrigues, J ; Habr-Gama, A ; Kuo, W.P ; Simpson, A.J ; Camargo, A.A ; Old, Lloyd J ; de Souza, S.J
Assuntos: Antigens ; Antigens, Surface - genetics ; Bioinformatics ; Biological Sciences ; Biomarkers, Tumor - genetics ; Biomarkers, Tumor - metabolism ; Cancer ; Cell Line, Tumor ; Cells ; Colorectal neoplasms ; Colorectal Neoplasms - genetics ; Computational Biology ; Databases, Genetic ; Datasets ; Epigenesis, Genetic ; Gene expression ; Genes ; Genetic diversity ; Genetic Variation ; Glioblastoma - genetics ; Humans ; Medical treatment ; Membrane proteins ; Membrane Proteins - genetics ; Membrane Proteins - metabolism ; Polymorphism ; Proteins ; Surface antigens ; Tumors
É parte de: Proceedings of the National Academy of Sciences - PNAS, 2009-09, Vol.106 (39), p.16752-16757
Notas: ObjectType-Article-1
SourceType-Scholarly Journals-1
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content type line 23
Contributed by Lloyd J. Old, July 16, 2009
1J.P.C.d.C. and P.A.F.G. contributed equally to this work.
Author contributions: L.J.O. and S.J.d.S. designed research; J.P.C.d.C., P.A.F.G., J.E.d.S., R.F.d.S., P.M.C., D.T.O., R.P.M., W.A.S., B.S., M.P., J.M., O.C., and W.P.K. performed research; S.M.O.-S., S.K.N.M., R.O.P., J.G.-R., and A.H.-G. contributed new reagents/analytic tools; J.P.C.d.C., P.A.F.G., A.A.C., L.J.O., and S.J.d.S. analyzed data; and A.J.S., A.A.C., L.J.O., and S.J.d.S. wrote the paper.
Descrição: 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.
Editor: United States: National Academy of Sciences
Idioma: Inglês

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Bioinformatics construction of the human cell surfaceome

United States: National Academy of Sciences

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