= Peer-reviewed Journals = == 2006 == == 2004 == 1. '''Global Mapping of the Yeast Genetic Interaction Network'''[[BR]]Tong AH, Lesage G, '''Bader GD''', Ding H, Xu H, Xin X, Young J, Berriz GF, Brost RL, Chang M, Chen Y, Cheng X, Chua G, Friesen H, Goldberg DS, Haynes J, Humphries C, He G, Hussein S, Ke L, Krogan N, Li Z, Levinson JN, Lu H, Menard P, Munyana C, Parsons AB, Ryan O, Tonikian R, Roberts T, Sdicu AM, Shapiro J, Sheikh B, Suter B, Wong SL, Zhang LV, Zhu H, Burd CG, Munro S, Sander C, Rine J, Greenblatt J, Peter M, Bretscher A, Bell G, Roth FP, Brown GW, Andrews B, Bussey H, Boone C[[BR]][http://www.sciencemag.org/cgi/content/full/303/5659/808 Science 2004 Feb 6;303(5659):808-813][[BR]][http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=14764870 PubMed Abstract] - [attachment:2004_GlobalMappingoftheYeastGeneticInteractionNetwork_TongEtAl_Science_Feb.pdf PDF][[BR]][attachment:2004_SGA_Hartwell_comment.pdf Science Perspective PDF] 1. '''The HUPO PSI Molecular Interaction Format - a community standard for the representation of protein interaction data'''[[BR]]Hermjakob H, Montecchi-Palazzi L, '''Bader G''', Wojcik J, Salwinski L, Ceol A, Moore S, Orchard S, Sarkans U, Von Mering C, Roechert B, Poux S, Jung E, Mersch H, Kersey P, Lappe M, Li Y, Zeng R, Rana D, Nikolski M, Husi H, Brun C, Shanker K, Grant SG, Sander C, Bork P, Zhu W, Pandey A, Brazma A, Jacq B, Vidal M, Sherman D, Legrain P, Cesareni G, Xenarios I, Eisenberg D, Steipe B, Hogue C, Apweiler R[[BR]][http://www.nature.com/cgi-taf/DynaPage.taf?file=/nbt/journal/v22/n2/abs/nbt926.html&dynoptions=doi1079900147 Nature Biotechnology 2004 Feb;22(2):177-83][[BR]][http://www.nature.com/cgi-taf/DynaPage.taf?file=/nbt/journal/v22/n2/abs/nbt926.html&dynoptions=doi1079900147 PubMed Abstract] - [attachment:2004_TheHUPOPSIsMolecularInteractionFormat_HermjakobMontecchiBaderEtAl_NatBiotech_Feb.pdf PDF] == 2003 == 1. '''Playing tag with the yeast proteome'''[[BR]] Andrews BJ, '''Bader GD''', Boone C[[BR]] [ Nature Biotechnology Nov;21(11):1297-1299][[BR]] [PubMed Abstract] - [PDF] 1. '''Functional Genomics and Proteomics: Charting a Multidimensional Map of the Cell'''[[BR]] '''Bader GD''', Heilbut A, Andrews B, Tyers M, Hughes T, Boone C[[BR]] [ Trends in Cell Biology Jul, 2003 13(7):344-56][[BR]] [PubMed Abstract] - [PDF] 1. '''PreBIND and Textomy - mining the biomedical literature for protein-protein interactions using a support vector machine'''[[BR]] Donaldson I, Martin J, De Bruijn B, Wolting C, Lay V, Tuekam B, Zhang S, Baskin B, '''Bader GD''', Michalickova K, Pawson T, Hogue CW[[BR]] [ BMC Bioinformatics Mar 27, 2003 4(1):11][[BR]] [PubMed Abstract] - [PDF] 1. '''Functional genomics of intracellular peptide recognition domains with combinatorial biology methods'''[[BR]] Sidhu SS, '''Bader GD''', Boone C[[BR]] [ Current Opinion in Chemical Biology 2003 Feb;7(1):97-102][[BR]] [PubMed Abstract] - [PDF] 1. '''An automated method for finding molecular complexes in large protein interaction networks'''[[BR]] '''Bader GD''', Hogue CWV[[BR]] [ BMC Bioinformatics'' 2003 Jan 13;4(1):2][[BR]] [PubMed Abstract] - [PDF] 1. '''BIND-The Biomolecular Interaction Network Database'''[[BR]] '''Bader GD''', Betel D, Hogue CWV[[BR]] [ Nucleic Acids Research Jan 1, 2003 31(1):248-250][[BR]] [PubMed Abstract] - [PDF] == 2002 == 1. '''SeqHound: biological sequence and structure database as a platform for bioinformatics research'''[[BR]] Michalickova K, '''Bader GD''', Dumontier M, Lieu H, Betel D, Isserlin R, Hogue CW[[BR]] [ BMC Bioinformatics 2002, 3:32 (25 October 2002)][[BR]] [PubMed Abstract] - [PDF] 1. '''Analyzing yeast protein–protein interaction data obtained from different sources'''[[BR]] '''Bader GD''', Hogue CW[[BR]] [ Nature Biotechnology 2002 Oct;20(10):991-997][[BR]] [PubMed Abstract] - [PDF] 1. '''A Combined Experimental and Computational Strategy to Define Protein Interaction Networks for Peptide Recognition Modules'''[[BR]] Tong AH, Drees B, Nardelli G, '''Bader GD''', Brannetti B, Castagnoli L, Evangelista M, Ferracuti S, Nelson B, Paoluzi S, Quondam M, Zucconi A, Hogue CW, Fields S, Boone C, Cesareni G[[BR]] [Science 2002 Jan 11;295(5553):321-324][[BR]] [PubMed Abstract] - [PDF][[BR]] [Science Perspective PDF] 1. '''Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry'''[[BR]] Ho Y, Gruhler A, Heilbut A, '''Bader GD''', Moore L, Adams SL, Millar A, Taylor P, Bennett K, Boutilier K, Yang L, Wolting C, Donaldson I, Schandorff S, Shewnarane J, Vo M, Taggart J, Goudreault M, Muskat B, Alfarano C, Dewar D, Lin Z, Michalickova K, Willems AR, Sassi H, Nielsen PA, Rasmussen KJ, Andersen JR, Johansen LE, Hansen LH, Jespersen H, Podtelejnikov A, Nielsen E, Crawford J, Poulsen V, Sorensen BD, Matthiesen J, Hendrickson RC, Gleeson F, Pawson T, Moran MF, Durocher D, Mann M, Hogue CW, Figeys D, Tyers M[[BR]] [ Nature 2002 Jan 10;415(6868): 180-183][[BR]] [PubMed Abstract] - [PDF] - [Supplementary website][[BR]] [Nature News and Views PDF] == 2001 == 1. '''Systematic Genetic Analysis with Ordered Arrays of Yeast Deletion Mutants'''[[BR]] Tong AH, Evangelista M, Parsons AB, Xu H, '''Bader GD''', Page N, Robinson M, Raghibizadeh S, Hogue CW, Bussey H, Andrews B, Tyers M, Boone C. [Science 2001 Dec 14;294(5550):2364-8][[BR]] [PubMed Abstract - PubMed] - [PDF] 1. '''BIND - The Biomolecular Interaction Network Database'''[[BR]] '''Bader GD''', Donaldson I, Wolting C, Ouellette BF, Pawson T, Hogue CW[[BR]] [ Nucleic Acids Research Jan 1, 2001 29(1):242-245][[BR]] [PubMed Abstract] - [PDF] == 2000 == 1. '''BIND - A data specification for storing and describing biomolecular interactions, molecular complexes and pathways'''[[BR]] '''Bader GD''', Hogue CW[[BR]] [ Bioinformatics. 2000 May;16(5):465-77][[BR]] [PubMed Abstract] - [PDF] = Textbook Chapters = 2004

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