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The COMBREX Project: Design, Methodology, and Initial Results

AuthorsAnton, Brian P.; Yi-Chien Chang; Brown, Peter J.; Choi, Han-Pil; Faller, Lina L.; Guleria, Jyotsna; Hu, Zhenjun; Klitgord, Niels; Levy-Moonshine, Ami; Maksad, Almaz; Mazumdar, Varun; Mark McGettrick; Osmani, Lais; Pokrzywa, Revonda; Rachlin, John; Swaminathan, Rajeswari; Allen, Benjamin; Housman, Genevieve; Monahan, Caitlin; Rochussen, Krista; Tao, Kevin; Bhagwat, Ashok S.; Brenner, Steven E.; Columbus, Linda; Crécy-Lagard, Valerié de; Ferguson, Donald; Fomenkov, Alexey; Gadda, Giovanni; Morgan, Richard D.; Osterman, Andrei L.; Rodionov, Dmitry A.; Rodionova, Irina A.; Rudd, Kenneth E.; Söll, Dieter; Spain, James; Xu, Shuang-yong; Bateman, Alex; Blumenthal, Robert M.; Bollinger, J. Martin; Chang, Woo-Suk; Ferrer, Manuel ; Friedberg, Iddo; Galperin, Michael Y.; Gobeill, Julien; Haft, Daniel; Hunt, John; Karp, Peter; Klimke, William; Krebs, Carsten; Macelis, Dana; Madupu, Ramana; Martín, María J.; Miller, Jeffrey H.; O’Donovan, Claire; Palsson, Bernhard; Ruch, Patrick; Setterdahl, Aaron; Sutton, Granger; Tate, John; Yakunin, Alexander F.; Tchigvintsev, Dmitri; Plata, Germán; Hu, Jie; Greiner, Russell; Horn, David; Sjölander, Kimmen; Salzberg, Steven L.; Vitkup, Dennis; Letovsky, Stanley; Segre, Daniel; DeLisi, Charles; Roberts, Richard J.; Steffen, Martin; Kasif, Simon
Issue Date27-Aug-2013
PublisherPublic Library of Science
CitationPlos Biology 11(8): e1001638 (2013)
AbstractPrior to the “genomic era,” when the acquisition of DNA sequence involved significant labor and expense, the sequencing of genes was strongly linked to the experimental characterization of their products. Sequencing at that time directly resulted from the need to understand an experimentally determined phenotype or biochemical activity. Now that DNA sequencing has become orders of magnitude faster and less expensive, focus has shifted to sequencing entire genomes. Since biochemistry and genetics have not, by and large, enjoyed the same improvement of scale, public sequence repositories now predominantly contain putative protein sequences for which there is no direct experimental evidence of function. Computational approaches attempt to leverage evidence associated with the ever-smaller fraction of experimentally analyzed proteins to predict function for these putative proteins. Maximizing our understanding of function over the universe of proteins in toto requires not only robust computational methods of inference but also a judicious allocation of experimental resources, focusing on proteins whose experimental characterization will maximize the number and accuracy of follow-on predictions.
Description© 2013 Brian P. et al.
Publisher version (URL)https://doi.org/10.1371/journal.pbio.1001638
Appears in Collections:(ICP) Artículos
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