The FLEXGene repository: Exploiting the fruits of the genome projects by creating a needed resource to face the challenges of the post-genomic era

Archives of Medical Research

Volumn 33, Issue 4, 2002, Pages 318-324

  Brizuela, Leonardo ^a   Richardson, Aaron ^a   Marsischky, Gerald ^a   Labaer, Joshua ^a  

^a HARVARD MEDICAL SCHOOL   (United States)

Author keywords

FLEXGene repository; Proteomics; Recombination cloning; Yeast genome

Indexed keywords

CONFERENCE PAPER; GENE SEQUENCE; GENE TECHNOLOGY; GENETIC RECOMBINATION; GENOME ANALYSIS; HUMAN; MEDICAL GENETICS; MEDICAL INFORMATION SYSTEM; MICROORGANISM; MOLECULAR CLONING; NONHUMAN; OPEN READING FRAME; PATHOGENESIS; PHENOTYPE; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN PURIFICATION; PROTEOMICS;

ANIMALS; CLONING, MOLECULAR; COMPUTATIONAL BIOLOGY; DATABASES, GENETIC; GENOME; GENOME, HUMAN; GENOMICS; HUMANS; OPEN READING FRAMES; PROTEOMICS;

EID: 0036662167     PISSN: 01884409     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0188-4409(02)00372-7     Document Type: Conference Paper

References (25)

1. Lander E.S., Linton L.M., Birren B., Nusbaum C., Zody M.C., Baldwin J., Devon K., Dewar K., Doyle M.et al. Initial sequencing and analysis of the human genome. Nature. 409:2001;860-921.
2. Venter J.C., Adams M.D., Myers E.W., Li P.W., Mural R.J., Sutton G.G., Smith H.O., Yandell M., Evans C.A., Holt R.A.et al. The sequence of the human genome. Science. 291:2001;1304-1350.
3. Sanger F., Coulson A.R., Hong G.F., Hill D.F., Petersen G.B. Nucleotide sequence of bacteriophage lambda DNA. J Mol Biol. 162:1982;729-773.
4. Goffeau A., Barrell B.G., Bussey H., Davis R.W., Dujon B., Feldmann H., Galibert F., Hoheisel J.D., Jacq C., Johnston M., Louis E.J., Mewes H.W., Murakami Y., Philippsen P., Tettelin H., Oliver S.G. Life with 6000 genes. Science. 274:1996;563-567.
5. Adams M.D., Celniker S.E., Holt R.A., Evans C.A., Gocayne G.D., Amanatides P.G., Scherer S.E., Li P.W., Hoskins R.A., Galle R.F., George R.A.et al. The genome sequence of Drosophila melanogaster. Science. 287:2000;2185.
6. Ainscough R., Bardill S., Barlow K.et al. Genome sequence of the nematode Caenorhabditis elegans. A platform for investigating biology. Science. 282:1998;2012-2018.
7. Yeh R.-F., Lim L.P., Burge C.B. Computational inference of homologous gene structures in the human genome. Genome Res. 11:2001;803-816.
8. Ashburner M., Ball C.A., Blake J.A., Botstein D., Butler H., Cherry J.M., Davis A.P., Dolinski K., Dwight S.S., Eppig J.T.et al. Gene ontology. tool for the unification of biology Nat Genet. 25:2000;25-29.
9. Brown P.O., Botstein D. Exploring the new world of the genome with DNA microarrays. Nat Genet. 21:1999;33-37.
10. Golub T.R., Slonim D.K., Tamayo P., Huard C., Gaasenbeek M., Mesirov J.P., Coller H., Loh M.L., Downing J.R., Caligiuri M.A., Bloomfield C.D., Lander E.S. Molecular classification of cancer. class discovery and class prediction by gene expression monitoring Science. 286:1999;531-537.
11. Sorlie T., Perou C.M., Tibshirani R., Aas T., Geisler S., Johnsen H., Hastie T., Eisen M.B., van de Rijn M., Jeffrey S.S., Thorsen T., Quist H., Matese J.C., Brown P.O., Botstein D., Eystein Lonning P., Borresen-Dale A.L. Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications. Proc Natl Acad Sci USA. 98:2001;10869-10874.
12. Gygi S.P., Rochon Y., Franza B.R., Aebersold R. Correlation between protein and mRNA abundance in yeast. Mol Cell Biol. 19:1999;1720-1730.
13. Stover C.K., Pham X.Q., Erwin A.L.et al. Complete genome sequence of Pseudomona aeruginosa PA01, an opportunistic pathogen. Nature. 406:2000;959-964.
14. Martzen M.R., McCraith S.M., Spinelli S.L., Torres F.M., Fields S., Grayhack E.J., Phizicky E.M. A biochemical genomics approach for identifying genes by the activity of their products. Science. 286:1999;1153-1155.
15. Uetz P., Giot L., Cagney G., Mansfield T.A., Judson R.S., Knight J.R., Lockshon D., Narayan V., Srinivasan M., Pochart P., Qureshi-Emili A., Li Y., Godwin B., Conover D., Kalbfleisch T., Vijayadamodar G., Yang M., Johnston M., Fields S., Rothberg J.M. A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae. Nature. 403:2000;623-627.
16. Rothstein R.J. One-step gene disruption in yeast. Methods Enzymol. 101:1983;202-211.
17. Zhang Y., Buchholz F., Muyrers J.P., Stewart A.F. A new logic for DNA engineering using recombination in Escherichia coli. Nat Genet. 20:1998;123-128.
18. Datsenko K.A., Wanner B.L. One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci USA. 97:2000;6640-6645.
19. Yu D., Ellis H.M., Lee E.C., Jenkins N.A., Copeland N.G., Court D.L. An efficient recombination system for chromosome engineering in Escherichia coli. Proc Natl Acad Sci USA. 97:2000;5978-5983.
20. Liu Q., Li M.Z., Leibham D., Cortéz D., Elledge S.J. The univector plasmid-fusion system, a method for rapid construction of recombinant DNA without restriction enzymes. Curr Biol. 8:1998;1300-1309.
21. www. clontech.com/products/families/creator/creatoraccess
22. Hartley J.L., Temple G.F., Brasch M.A. DNA cloning using in vitro site-specific recombination. Genome Res. 10:2000;1788-1795.
23. Reboul J., Vaglio P., Tzellas N., Thierry-Mieg N., Moore T., Jackson C., Shin-i T., Kohara Y., Thierry-Mieg D., Thierry-Mieg J., Lee H., Hitti J., Doucette-Stamm L., Hartley J.L., Temple G.F., Brasch M.A., Vandenhaute J., Lamesch P.E., Hill D.E., Vidal M. Open-reading-frame sequence tags (OSTs) support the existence of at least 17,300 genes in C. elegans. Nat Genet. 27:2001;332-336.
24. Brizuela L., Braun P., Labaer J. FLEXGene repository. from sequenced genomes to gene repositories for high-throughput functional biology and proteomics Mol Biochem Parasitol. 118:2001;155-165.
25. Youil R., Toner T.J., Su Q., Kaslow D.C. Rapid method for isolation of full length adenoviral genomes by bacterial intermolecular homologous recombination. J Virol Meth. 92:2001;91-97.