DRYGIN: A database of quantitative genetic interaction networks in yeast

Nucleic Acids Research

Volumn 38, Issue SUPPL.1, 2009, Pages

  Koh, Judice L Y ^a   Ding, Huiming ^a   Costanzo, Michael ^a   Baryshnikova, Anastasia ^a   Toufighi, Kiana ^a   Bader, Gary D ^a   Myers, Chad L ^b   Andrews, Brenda J ^a   Boone, Charles ^a  

^a UNIVERSITY OF TORONTO   (Canada)

^b University of Minnesota   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACCESS TO INFORMATION; ARTICLE; CONTROLLED STUDY; DATA REPOSITORY OF YEAST GENETIC INTERACTIONS DATABASE; EUKARYOTIC CELL; GENE INTERACTION; GENE MAPPING; GENETIC DATABASE; INTERNET; NONHUMAN; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; SACCHAROMYCES CEREVISIAE; BIOLOGICAL MODEL; BIOLOGY; COMPUTER PROGRAM; FUNGAL GENE; FUNGAL GENOME; GENETICS; INFORMATION RETRIEVAL; METHODOLOGY; NUCLEIC ACID DATABASE; PROTEIN ANALYSIS; PROTEIN DATABASE; PROTEIN TERTIARY STRUCTURE;

EUKARYOTA;

FUNGAL PROTEIN;

COMPUTATIONAL BIOLOGY; DATABASES, GENETIC; DATABASES, NUCLEIC ACID; DATABASES, PROTEIN; FUNGAL PROTEINS; GENES, FUNGAL; GENOME, FUNGAL; INFORMATION STORAGE AND RETRIEVAL; INTERNET; MODELS, GENETIC; PROTEIN INTERACTION MAPPING; PROTEIN STRUCTURE, TERTIARY; SOFTWARE;

EID: 75549091259     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkp820     Document Type: Article

References (19)

1. Boone, C., Bussey, H. and Andrews, B.J. (2007) Exploring genetic interactions and networks with yeast. Nat. Rev., 8, 1641-1649.
2. Tong, A.H.Y., Evangelista, M., Parson, A.B., Xu, H., Bader, G.D., Page, N., Robinson, M., Raghibizadeh, S., Hogue, C.W.V., Bussey, H. et al. (2001) Systematic genetic analysis with ordered arrays of yeast deletion mutants. Science, 294, 2365-2368.
3. Tong, A.H., Lesage, G., Bader, G.D., Ding, H., Xu, H., Xin, X., Young, J., Berriz, G.F., Brost, R.L., Chang, M. et al. (2004) Global mapping of the yeast genetic interaction network. Science, 303, 808-813.
4. Dixon, S.J., Fedyshyn, Y., Koh, J.L.Y., Prasad, T.S., Chahwan, C., Chua, G., Toufighi, K., Baryshnikova, A., Hayles, J., Hoe, K. et al. (2008) Significant conservation of synthetic lethal genetic interaction networks between distantly-related eukaryotes. Proc. Natl Acad. Sci. USA, 105, 16653-16658.
5. Stark, C., Breitkreutz, B.J., Reguly, T., Boucher, L., Breitkreutz, A. and Tyers, M. (2006) BIOGRID: a general repository for interaction datasets. Nucleic Acids Res., 34, D535-D539.
6. Hirschman, J.E., Balakrishnan, R., Christie, K.R., Costanzo, M.C., Dwight, S.S., Engel, S.R., Fisk, D.G., Hong, E.L., Livstone, M.S., Nash, R. et al. (2006) Genome Snapshot: a new resource at the Saccharomyces Genome Database (SGD) presenting an overview of the Saccharomyces cerevisiae genome. Nucleic Acids Res., 34, D442-D445.
7. Mewes, H.W., Dietmann, S., Frishman, D., Gregory, R., Mannhaupt, G., Mayer, K., Muensterkötter, M., Ruepp, A., Spannagl, M., Stuempflen, V. et al. (2008) MIPS: analysis and annotation of genome information in 2007. Nucleic Acids Res., 36, D196-D201.
8. Fisher, R.A. (1918) The correlations between relatives on the supposition of Mendelian inheritence. Trans. R. Soc. Edinb., 52, 399-433.
9. Schuldiner, M., Collins, S., Thompson, N., Denic, V., Bhamidipati, A., Punna, T., Ihmels, J., Andrews, B., Boone, C., Greenblatt, J. et al. (2005) Exploration of the function and organization of the yeast early secretory pathway through an epistatic miniarray profile. Cell, 123, 507-519.
10. Beyer, A., Bandyopadhyay, S. and Ideker, T. (2007) Integrating physical and genetic maps: from genomes to interaction networks. Nat. Rev. Genet., 8, 699-710.
11. Bandyopadhyay, S., Kelley, R., Krogan, N.J. and Ideker, T. (2008) Functional maps of protein complexes from quantitative genetic interaction data. PLoS Comput. Biol., 4, e1000065.
12. Shannon, P., Markiel, A., Ozier, O., Baliga, N.S., Wang, J.T., Ramage, D., Amin, N., Schwikowski, B. and Ideker, T. (2003) Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res., 13, 2498-2504.
13. Segrè, D., DeLuna, A., Church, G.M. and Kishony, R. (2005) Modular epistasis in yeast metabolism. Nat. Genet., 3, 77-83.
14. Pu, S., Wong, J., Turner, B., Cho, E. and Wodak, S.J. (2009) Up-to-date catalogues of yeast protein complexes. Nucleic Acids Res., 37, 825-831.
15. Kanehisa, M., Araki, M., Goto, S., Hattori, M., Hirakawa, M., Itoh, M., Katayama, T., Kawashima, S., Okuda, S., Tokimatsu, T. et al. (2008) KEGG for linking genomes to life and the environment. Nucleic Acids Res., 36, D480-D484.
16. Matthews, L., Gopinath, G., Gillespie, M., Caudy, M., Croft, D., de Bono, B., Garapati, P., Hemish, J., Hermjakob, H., Jassal, B. et al. (2009) Reactome knowledgebase of human biological pathways and processes. Nucleic Acids Res., 37, D619-D622.
17. Chang, A.N., MacDermott, J. and Samudrala, R. (2005) An enhanced Java graph applet interface for visualizing interactomes. Bioinformatics, 21, 1741-1742.
18. Saldanha, A.J. (2004) Java Treeview-extensible visualization of microarray data. Bioinformatics, 20, 3246-3248.
19. Hermjakob, H., Montecchi-Palazzi, L., Bader, G., Wojcik, J., Salwinski, L., Ceol, A., Moore, S., Orchard, S., Sarkans, U., von Mering, C. et al. (2004) The HUPO PSI's molecular interaction format - a community standard for the representation of protein interaction data. Nat. Biotechnol, 22, 177-183.