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The Status, Quality, and Expansion of the NIH Full-Length cDNA Project: The Mammalian Gene Collection (MGC)

2004; Cold Spring Harbor Laboratory Press; Volume: 14; Issue: 10b Linguagem: Inglês

10.1101/gr.2596504

1549-5469

Daniela S. Gerhard, Lukas Wagner, Elise A. Feingold, Carolyn M. Shenmen, Lynette Grouse, Greg Schuler, Steven L. Klein, Susan Old, Rebekah S. Rasooly, Peter J. Good, Mark S. Guyer, Allison M. Peck, Jeffery G. Derge, David J. Lipman, Francis S. Collins, Wonhee Jang, Stephen T. Sherry, Mike Feolo, Leonie Misquitta, Eduardo Lee, Kirill E. Rotmistrovsky, Susan F. Greenhut, Carl F. Schaefer, Kenneth H. Buetow, Tom I. Bonner, David Haussler, Jim Kent, Mark Diekhans, Terrence S. Furey, Michael R. Brent, Christa Prange, Kirsten Schreiber, Nicole Shapiro, Narayan Bhat, Ralph F. Hopkins, Florence Hsie, Tom Driscoll, Marcelo B. Soares, Maria F. Bonaldo, T.L. Casavant, Todd E. Scheetz, Michael Brownstein, Ted B. Usdin, Toshiyuki Shiraki, Piero Carninci, Yulan Piao, Dawood B. Dudekula, Minoru S.H. Ko, Koichi Kawakami, Yutaka Suzuki, Sumio Sugano, C. E. Gruber, M. Smith, Blake A. Simmons, Troy Moore, Richard Waterman, Stephen L. Johnson, Yijun Ruan, Chia Lin Wei, Sinnakaruppan Mathavan, Preethi H. Gunaratne, Jiaqian Wu, Angela Garcia, Stephen W. Hulyk, Edwin Fuh, Ye Yuan, Anna Sneed, Carla Kowis, Anne V. Hodgson, Donna M. Muzny, John D. McPherson, Richard A. Gibbs, Jessica Fahey, Erin Helton, Mark Ketteman, Anuradha Madan, Stephanie Rodrigues, Amy Sanchez, Michelle Whiting, Anup Madan, Alice Young, Keith Wetherby, Stephen J. Granite, Peggy N. Kwong, Charles P. Brinkley, Russell L. Pearson, Gerard G. Bouffard, Robert W. Blakesly, Eric D. Green, Mark Dickson, Álex Rodríguez, Jonathan Wood, Jeremy Schmutz, R Myers, Yaron S.N. Butterfield, Malachi Griffith, Obi L. Griffith, Martin Krzywinski, Nancy Liao, Ryan Morrin, Diana Palmquist, Anca S. Petrescu, Ursula Skalska, Duane E. Smailus, Jeff Stott, Angelique Schnerch, Jacqueline E. Schein, Steven J.M. Jones, Robert A. Holt, Ágnes Baross, Marco A. Marra, Sandra W. Clifton, Kathryn A. Makowski, Stephanie Bosak, Joel A. Malek,

Gene expression and cancer classification

The National Institutes of Health's Mammalian Gene Collection (MGC) project was designed to generate and sequence a publicly accessible cDNA resource containing a complete open reading frame (ORF) for every human and mouse gene. The project initially used a random strategy to select clones from a large number of cDNA libraries from diverse tissues. Candidate clones were chosen based on 5′-EST sequences, and then fully sequenced to high accuracy and analyzed by algorithms developed for this project. Currently, more than 11,000 human and 10,000 mouse genes are represented in MGC by at least one clone with a full ORF. The random selection approach is now reaching a saturation point, and a transition to protocols targeted at the missing transcripts is now required to complete the mouse and human collections. Comparison of the sequence of the MGC clones to reference genome sequences reveals that most cDNA clones are of very high sequence quality, although it is likely that some cDNAs may carry missense variants as a consequence of experimental artifact, such as PCR, cloning, or reverse transcriptase errors. Recently, a rat cDNA component was added to the project, and ongoing frog ( Xenopus ) and zebrafish ( Danio ) cDNA projects were expanded to take advantage of the high-throughput MGC pipeline.