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. 2002 Jun;3(3):221–225. doi: 10.1002/cfg.172

Upstream – News in Genomics

PMCID: PMC2447274  PMID: 18628853

Abstract

In recent months a bumper crop of genomes has been completed, including the fission yeast (Schizosaccharomyces pombe) and rice (Oryza sativa). Two large-scale studies of Saccharomyces cerevisiae protein complexes provided a picture of the eukaryotic proteome as a network of complexes. Amongst the other stories of interest was a demonstration that proteomic analysis of blood samples can be used to detect ovarian cancer, perhaps even as early as stage I.

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Selected References

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  1. Akerley Brian J., Rubin Eric J., Novick Veronica L., Amaya Kensey, Judson Nicholas, Mekalanos John J. A genome-scale analysis for identification of genes required for growth or survival of Haemophilus influenzae. Proc Natl Acad Sci U S A. 2002 Jan 22;99(2):966–971. doi: 10.1073/pnas.012602299. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Butler Declan. Geneticists get steamed up over public access to rice genome. Nature. 2002 Mar 14;416(6877):111–112. doi: 10.1038/416111a. [DOI] [PubMed] [Google Scholar]
  3. Dziejman Michelle, Balon Emmy, Boyd Dana, Fraser Clare M., Heidelberg John F., Mekalanos John J. Comparative genomic analysis of Vibrio cholerae: genes that correlate with cholera endemic and pandemic disease. Proc Natl Acad Sci U S A. 2002 Jan 29;99(3):1556–1561. doi: 10.1073/pnas.042667999. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Fitz-Gibbon Sorel T., Ladner Heidi, Kim Ung-Jin, Stetter Karl O., Simon Melvin I., Miller Jeffrey H. Genome sequence of the hyperthermophilic crenarchaeon Pyrobaculum aerophilum. Proc Natl Acad Sci U S A. 2002 Jan 15;99(2):984–989. doi: 10.1073/pnas.241636498. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Gavin Anne-Claude, Bösche Markus, Krause Roland, Grandi Paola, Marzioch Martina, Bauer Andreas, Schultz Jörg, Rick Jens M., Michon Anne-Marie, Cruciat Cristina-Maria. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature. 2002 Jan 10;415(6868):141–147. doi: 10.1038/415141a. [DOI] [PubMed] [Google Scholar]
  6. Goff Stephen A., Ricke Darrell, Lan Tien-Hung, Presting Gernot, Wang Ronglin, Dunn Molly, Glazebrook Jane, Sessions Allen, Oeller Paul, Varma Hemant. A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science. 2002 Apr 5;296(5565):92–100. doi: 10.1126/science.1068275. [DOI] [PubMed] [Google Scholar]
  7. Ho Yuen, Gruhler Albrecht, Heilbut Adrian, Bader Gary D., Moore Lynda, Adams Sally-Lin, Millar Anna, Taylor Paul, Bennett Keiryn, Boutilier Kelly. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature. 2002 Jan 10;415(6868):180–183. doi: 10.1038/415180a. [DOI] [PubMed] [Google Scholar]
  8. Klose Joachim, Nock Christina, Herrmann Marion, Stühler Kai, Marcus Katrin, Blüggel Martin, Krause Eberhard, Schalkwyk Leonard C., Rastan Sohaila, Brown Steve D. M. Genetic analysis of the mouse brain proteome. Nat Genet. 2002 Mar 25;30(4):385–393. doi: 10.1038/ng861. [DOI] [PubMed] [Google Scholar]
  9. Kumar Anuj, Agarwal Seema, Heyman John A., Matson Sandra, Heidtman Matthew, Piccirillo Stacy, Umansky Lara, Drawid Amar, Jansen Ronald, Liu Yang. Subcellular localization of the yeast proteome. Genes Dev. 2002 Mar 15;16(6):707–719. doi: 10.1101/gad.970902. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Lander E. S., Linton L. M., Birren B., Nusbaum C., Zody M. C., Baldwin J., Devon K., Dewar K., Doyle M., FitzHugh W. Initial sequencing and analysis of the human genome. Nature. 2001 Feb 15;409(6822):860–921. doi: 10.1038/35057062. [DOI] [PubMed] [Google Scholar]
  11. Myers Eugene W., Sutton Granger G., Smith Hamilton O., Adams Mark D., Venter J. Craig. On the sequencing and assembly of the human genome. Proc Natl Acad Sci U S A. 2002 Mar 19;99(7):4145–4146. doi: 10.1073/pnas.092136699. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Paddison Patrick J., Caudy Amy A., Hannon Gregory J. Stable suppression of gene expression by RNAi in mammalian cells. Proc Natl Acad Sci U S A. 2002 Jan 29;99(3):1443–1448. doi: 10.1073/pnas.032652399. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Petricoin Emanuel F., Ardekani Ali M., Hitt Ben A., Levine Peter J., Fusaro Vincent A., Steinberg Seth M., Mills Gordon B., Simone Charles, Fishman David A., Kohn Elise C. Use of proteomic patterns in serum to identify ovarian cancer. Lancet. 2002 Feb 16;359(9306):572–577. doi: 10.1016/S0140-6736(02)07746-2. [DOI] [PubMed] [Google Scholar]
  14. Salanoubat M., Genin S., Artiguenave F., Gouzy J., Mangenot S., Arlat M., Billault A., Brottier P., Camus J. C., Cattolico L. Genome sequence of the plant pathogen Ralstonia solanacearum. Nature. 2002 Jan 31;415(6871):497–502. doi: 10.1038/415497a. [DOI] [PubMed] [Google Scholar]
  15. Shimizu Tohru, Ohtani Kaori, Hirakawa Hideki, Ohshima Kenshiro, Yamashita Atsushi, Shiba Tadayoshi, Ogasawara Naotake, Hattori Masahira, Kuhara Satoru, Hayashi Hideo. Complete genome sequence of Clostridium perfringens, an anaerobic flesh-eater. Proc Natl Acad Sci U S A. 2002 Jan 15;99(2):996–1001. doi: 10.1073/pnas.022493799. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Su Andrew I., Cooke Michael P., Ching Keith A., Hakak Yaron, Walker John R., Wiltshire Tim, Orth Anthony P., Vega Raquel G., Sapinoso Lisa M., Moqrich Aziz. Large-scale analysis of the human and mouse transcriptomes. Proc Natl Acad Sci U S A. 2002 Mar 19;99(7):4465–4470. doi: 10.1073/pnas.012025199. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. 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. The sequence of the human genome. Science. 2001 Feb 16;291(5507):1304–1351. doi: 10.1126/science.1058040. [DOI] [PubMed] [Google Scholar]
  18. Waterston Robert H., Lander Eric S., Sulston John E. On the sequencing of the human genome. Proc Natl Acad Sci U S A. 2002 Mar 5;99(6):3712–3716. doi: 10.1073/pnas.042692499. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Wixon Jo, Dicks Jo. Meeting highlights: plant, animal and microbe genomes X. Comp Funct Genomics. 2002;3(2):178–193. doi: 10.1002/cfg.168. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Wixon Jo. Featured organism: Schizosaccharomyces pombe, the fission yeast. Comp Funct Genomics. 2002;3(2):194–204. doi: 10.1002/cfg.92. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Wood V., Gwilliam R., Rajandream M-A, Lyne M., Lyne R., Stewart A., Sgouros J., Peat N., Hayles J., Baker S. The genome sequence of Schizosaccharomyces pombe. Nature. 2002 Feb 21;415(6874):871–880. doi: 10.1038/nature724. [DOI] [PubMed] [Google Scholar]
  22. Yu Jun, Hu Songnian, Wang Jun, Wong Gane Ka-Shu, Li Songgang, Liu Bin, Deng Yajun, Dai Li, Zhou Yan, Zhang Xiuqing. A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science. 2002 Apr 5;296(5565):79–92. doi: 10.1126/science.1068037. [DOI] [PubMed] [Google Scholar]

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