Differential network biology

Molecular Systems Biology

Volumn 8, Issue , 2012, Pages

  Ideker, Trey ^a   Krogan, Nevan J ^b,c,d  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d GLADSTONE INSTITUTES   (United States)

Author keywords

genetic interactions; networks; protein interactions

Indexed keywords

ADAPTATION; BIOINFORMATICS; DEVELOPMENT; EXPERIMENTAL DESIGN; GENE EXPRESSION; GENE INTERACTION; GENE MAPPING; GENOMICS; HOUSEKEEPING GENE; HUMAN; NONHUMAN; PRIORITY JOURNAL; PROTEIN INTERACTION; PROTEIN PHOSPHORYLATION; PROTEIN PROTEIN INTERACTION; PROTEOMICS; REVIEW; SPECIES DIFFERENTIATION; STATISTICAL ANALYSIS; ANIMAL; BIOLOGICAL MODEL; BIOLOGY; ESSENTIAL GENE; GENE REGULATORY NETWORK; GENETIC EPISTASIS; GENETICS; METHODOLOGY; PHYSIOLOGY; SYSTEMS BIOLOGY;

ANIMALS; BIOLOGY; EPISTASIS, GENETIC; GENE REGULATORY NETWORKS; GENES, ESSENTIAL; HUMANS; MATCHED-PAIR ANALYSIS; MODELS, BIOLOGICAL; PROTEIN INTERACTION MAPS; SYSTEMS BIOLOGY;

EID: 84856094560     PISSN: None     EISSN: 17444292     Source Type: Journal    
DOI: 10.1038/msb.2011.99     Document Type: Review

References (83)

1. Aebersold R, Mann M (2003) Mass spectrometry-based proteomics. Nature 422: 198-207 (Pubitemid 36362757)
2. Andersen CL, Jensen JL, Orntoft TF (2004) Normalization of real-time quantitative reverse transcription-PCR data: a model-based variance estimation approach to identify genes suited for normalization, applied to bladder and colon cancer data sets. Cancer Res 64: 5245-5250 (Pubitemid 39006544)
3. Aranda B, Achuthan P, Alam-Faruque Y, Armean I, Bridge A, Derow C, Feuermann M, Ghanbarian AT, Kerrien S, Khadake J, Kerssemakers J, Leroy C, Menden M, Michaut M, Montecchi-Palazzi L, Neuhauser SN, Orchard S, Perreau V, Roechert B, van Eijk K et al (2010) The IntAct molecular interaction database in 2010. Nucleic Acids Res 38: D525-D531
4. Bader GD, Hogue CW (2003) An automated method for finding molecular complexes in large protein interaction networks. BMC Bioinformatics 4: 2
5. Bakal C, Linding R, Llense F, Heffern E, Martin-Blanco E, Pawson T, Perrimon N (2008) Phosphorylation networks regulating JNK activity in diverse genetic backgrounds. Science 322: 453-456
6. Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller B, Licon K, Copeland W, Shales M, Fiedler D, Dutkowski J, Guenole A, van Attikum H, Shokat KM, Kolodner RD, Huh WK, Aebersold R, Keogh MC, Krogan NJ et al (2010) Rewiring of genetic networks in response to DNA damage. Science 30: 1385-1389
7. Barabasi AL (2009) Scale-free networks: a decade and beyond. Science 325: 412-413
8. Barrios-Rodiles M, Brown KR, Ozdamar B, Bose R, Liu Z, Donovan RS, Shinjo F, Liu Y, Dembowy J, Taylor IW, Luga V, Przulj N, Robinson M, Suzuki H, Hayashizaki Y, Jurisica I, Wrana JL (2005) Highthroughput mapping of a dynamic signaling network in mammalian cells. Science 307: 1621-1625 (Pubitemid 40354744)
9. Beltrao P, Cagney G, Krogan NJ (2010) Quantitative genetic interactions reveal biological modularity. Cell 141: 739-745
10. Beltrao P, Trinidad JC, Fiedler D, Roguev A, Lim WA, Shokat KM, Burlingame AL, Krogan NJ (2009) Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species. PLoS Biol 7: e1000134
11. Bishop AC, Ubersax JA, Petsch DT, Matheos DP, Gray NS, Blethrow J, Shimizu E, Tsien JZ, Schultz PG, Rose MD, Wood JL, Morgan DO, Shokat KM (2000) A chemical switch for inhibitor-sensitive alleles of any protein kinase. Nature 407: 395-401
12. Bisson N, James DA, Ivosev G, Tate SA, Bonner R, Taylor L, Pawson T (2011) Selected reaction monitoring mass spectrometry reveals the dynamics of signaling through the GRB2 adaptor. Nat iotechnol 29: 653-658
13. Borneman AR, Gianoulis TA, Zhang ZD, Yu H, Rozowsky J, Seringhaus MR, Wang LY, Gerstein M, Snyder M (2007) Divergence of transcription factor binding sites across related yeast species. Science 317: 815-819 (Pubitemid 47257921)
14. Braun P, Rietman E, Vidal M (2008) Networking metabolites and diseases. Proc Natl Acad Sci USA 105: 9849-9850
15. Butland G, Babu M, Diaz-Mejia JJ, Bohdana F, Phanse S, Gold B, Yang W, Li J, Gagarinova AG, Pogoutse O, Mori H, Wanner BL, Lo H, Wasniewski J, Christopolous C, Ali M, Venn P, Safavi-Naini A, Sourour N, Caron S et al (2008) eSGA: E. coli synthetic genetic array analysis. Nature Methods 5: 789-795
16. Butland G, Peregrin-Alvarez JM, Li J, Yang W, Yang X, Canadien V, Starostine A, Richards D, Beattie B, Krogan N, Davey M, Parkinson J, Greenblatt J, Emili A (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433: 531-537 (Pubitemid 40204311)
17. Chuang HY, Lee E, Liu YT, Lee D, Ideker T (2007) Network-based classification of breast cancer metastasis. Mol Syst Biol 3: 140
18. Collins SR, Miller KM, Maas NL, Roguev A, Fillingham J, Chu CS, Schuldiner M, Gebbia M, Recht J, Shales M, Ding H, Xu H, Han J, Ingvarsdottir K, Cheng B, Andrews B, Boone C, Berger SL, Hieter P, Zhang Z et al (2007) Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map. Nature 446: 806-810 (Pubitemid 46582025)
19. Consortium AIM (2011) Evidence for network evolution in an Arabidopsis interactome map. Science 333: 601-607
20. Costanzo M, Baryshnikova A, Bellay J, Kim Y, Spear ED, Sevier CS, Ding H, Koh JL, Toufighi K, Mostafavi S, Prinz J, St Onge RP, VanderSluis B, Makhnevych T, Vizeacoumar FJ, Alizadeh S, Bahr S, Brost RL, Chen Y, Cokol M et al (2010) The genetic landscape of a cell. Science 327: 425-431
21. de Lichtenberg U, Jensen LJ, Brunak S, Bork P (2005) Dynamic complex formation during the yeast cell cycle. Science 307: 724-727 (Pubitemid 40194642)
22. Dixon SJ, Fedyshyn Y, Koh JL, Prasad TS, Chahwan C, Chua G, Toufighi K, Baryshnikova A, Hayles J, Hoe KL, Kim DU, Park HO, Myers CL, Pandey A, Durocher D, Andrews BJ, Boone C (2008) Significant conservation of synthetic lethal genetic interaction networks between distantly related eukaryotes. Proc Natl Acad Sci USA 105: 16653-16658
23. Fischbach MA, Krogan NJ (2010) The next frontier of systems biology: higher-order and interspecies interactions. Genome Biol 11: 208
24. Gavin AC, Aloy P, Grandi P, Krause R, Boesche M, Marzioch M, Rau C, Jensen LJ, Bastuck S, Dumpelfeld B, Edelmann A, Heurtier MA, Hoffman V, Hoefert C, Klein K, Hudak M, Michon AM, Schelder M, Schirle M, Remor M et al (2006) Proteome survey reveals modularity of the yeast cell machinery. Nature 440: 631-636
25. Goh KI, Cusick ME, Valle D, Childs B, Vidal M, Barabasi AL (2007) The human disease network. Proc Natl Acad Sci USA 104: 8685-8690 (Pubitemid 47175372)
26. Gygi SP, Rist B, Gerber SA, Turecek F, Gelb MH, Aebersold R (1999) Quantitative analysis of complex protein mixtures using isotopecoded affinity tags. Nat Biotechnol 17: 994-999 (Pubitemid 29474856)
27. Harbison CT, Gordon DB, Lee TI, Rinaldi NJ, Macisaac KD, Danford TW, Hannett NM, Tagne JB, Reynolds DB, Yoo J, Jennings EG, Zeitlinger J, Pokholok DK, Kellis M, Rolfe PA, Takusagawa KT, Lander ES, Gifford DK, Fraenkel E, Young RA (2004) Transcriptional regulatory code of a eukaryotic genome. Nature 431: 99-104 (Pubitemid 39215116)
28. Hatfield GW, Hung SP, Baldi P (2003) Differential analysis of DNA microarray gene expression data. Mol Microbiol 47: 871-877 (Pubitemid 36232787)
29. Holt LJ, Tuch BB, Villen J, Johnson AD, Gygi SP, Morgan DO (2009) Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution. Science 325: 1682-1686
30. Horn T, Sandmann T, Fischer B, Axelsson E, Huber W, Boutros M (2011) Mapping of signaling networks through synthetic genetic interaction analysis by RNAi. Nature Methods 8: 341-346
31. Ideker T, Ozier O, Schwikowski B, Siegel AF (2002) Discovering regulatory and signalling circuits in molecular interaction networks. Bioinformatics 18(Suppl 1): S233-S240 (Pubitemid 41185658)
32. Iyer VR, Horak CE, Scafe CS, Botstein D, Snyder M, Brown PO (2001) Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature 409: 533-538 (Pubitemid 32144361)
33. Jäger S, Cimermancic P, Gulbahce N, Johnson JR, McGovern KE, Clarke SC, Shales M, Mercenne G, Pache L, Li K, Hernandez H, Jang GM, Roth SL, Akiva E, Marlett J, Stephens M, D'Orso I, Fernandes J, Fahey M, Mahon C et al (2011) Global landscape of HIV-human protein complexes. Nature (advance online publication, 21 December 2011; doi:10.1038/nature10719)
34. Jorgensen C, Sherman A, Chen GI, Pasculescu A, Poliakov A, Hsiung M, Larsen B, Wilkinson DG, Linding R, Pawson T (2009) Cellspecific information processing in segregating populations of Eph receptor ephrin-expressing cells. Science 326: 1502-1509
35. Kapitzky L, Beltrao P, Berens TJ, Gassner N, Zhou C, Wuster A, Wu J, Babu MM, Elledge SJ, Toczyski D, Lokey RS, Krogan NJ (2010) Cross-species chemogenomic profiling reveals evolutionarily conserved drug mode of action. Mol Syst Biol 6: 451
36. Kelley BP, Sharan R, Karp RM, Sittler T, Root DE, Stockwell BR, Ideker T (2003) Conserved pathways within bacteria and yeast as revealed by global protein network alignment. Proc Natl Acad Sci USA 100: 11394-11399 (Pubitemid 37205946)
37. Kerr MK, Martin M, Churchill GA (2000) Analysis of variance for gene expression microarray data. J Comput Biol 7: 819-837
38. Keshava Prasad TS, Goel R, Kandasamy K, Keerthikumar S, Kumar S, Mathivanan S, Telikicherla D, Raju R, Shafreen B, Venugopal A, Balakrishnan L, Marimuthu A, Banerjee S, Somanathan DS, Sebastian A, Rani S, Ray S, Harrys Kishore CJ, Kanth S, Ahmed M et al (2009) Human Protein Reference Database-2009 update. Nucleic Acids Res 37: D767-D772
39. Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP, Punna T, Peregrin-Alvarez JM, Shales M, Zhang X, Davey M, Robinson MD, Paccanaro A, Bray JE, Sheung A, Beattie B et al (2006) Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 440: 637-643
40. Lambert JP, Fillingham J, Siahbazi M, Greenblatt J, Baetz K, Figeys D (2010) Defining the budding yeast chromatin-associated interactome. Mol Syst Biol 6: 448
41. Lewin B (2007) Genes IX. Burlington, MA: Jones and Bartlett Learning
42. Liang P, Pardee AB (1992) Differential display of eukaryotic messenger RNA by means of the polymerase chain reaction. Science 257: 967-971
43. Linding R, Jensen LJ, Ostheimer GJ, van Vugt MA, Jorgensen C, Miron IM, Diella F, Colwill K, Taylor L, Elder K, Metalnikov P, Nguyen V, Pasculescu A, Jin J, Park JG, Samson LD, Woodgett JR, Russell RB, Bork P, Yaffe MB et al (2007) Systematic discovery of in vivo phosphorylation networks. Cell 129: 1415-1426 (Pubitemid 46962092)
44. Liu YY, Slotine JJ, Barabasi AL (2011) Controllability of complex networks. Nature 473: 167-173
45. Luscombe NM, Babu MM, Yu H, Snyder M, Teichmann SA, Gerstein M (2004) Genomic analysis of regulatory network dynamics reveals large topological changes. Nature 431: 308-312 (Pubitemid 39265665)
46. Maeder CI, Hink MA, Kinkhabwala A, Mayr R, Bastiaens PI, Knop M (2007) Spatial regulation of Fus3 MAP kinase activity through a reaction-diffusion mechanism in yeast pheromone signalling. Nat Cell Biol 9: 1319-1326 (Pubitemid 350042364)
47. Matthews LR, Vaglio P, Reboul J, Ge H, Davis BP, Garrels J, Vincent S, Vidal M (2001) Identification of potential interaction networks using sequence-based searches for conserved protein-protein interactions or "interologs". Genome Res 11: 2120-2126 (Pubitemid 33138810)
48. Milo R, Shen-Orr S, Itzkovitz S, Kashtan N, Chklovskii D, Alon U (2002) Network motifs: simple building blocks of complex networks. Science 298: 824-827 (Pubitemid 35231534)
49. Mukhtar MS, Carvunis AR, Dreze M, Epple P, Steinbrenner J, Moore J, Tasan M, Galli M, Hao T, Nishimura MT, Pevzner SJ, Donovan SE, Ghamsari L, Santhanam B, Romero V, Poulin MM, Gebreab F, Gutierrez BJ, Tam S, Monachello D et al (2011) Independently evolved virulence effectors converge onto hubs in a plant immune system network. Science 333: 596-601
50. Nagai S, Dubrana K, Tsai-Pflugfelder M, Davidson MB, Roberts TM, Brown GW, Varela E, Hediger F, Gasser SM, Krogan NJ (2008) Functional targeting of DNA damage to a nuclear pore-associated SUMO-dependent ubiquitin ligase. Science 322: 597-602
51. Ong SE, Blagoev B, Kratchmarova I, Kristensen DB, Steen H, Pandey A, Mann M (2002) Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol Cell Proteomics 1: 376-386
52. Pawson T, Linding R (2008) Network medicine. FEBS Lett 582: 1266-1270
53. Ptacek J, Devgan G, Michaud G, Zhu H, Zhu X, Fasolo J, Guo H, Jona G, Breitkreutz A, Sopko R, McCartney RR, Schmidt MC, Rachidi N, Lee SJ, Mah AS, Meng L, Stark MJ, Stern DF, De Virgilio C, TyersMet al (2005) Global analysis of protein phosphorylation in yeast. Nature 438: 679-684 (Pubitemid 41740579)
54. Ren B, Robert F,Wyrick JJ, Aparicio O, Jennings EG, Simon I, Zeitlinger J, Schreiber J, Hannett N, Kanin E, Volkert TL, Wilson CJ, Bell SP, Young RA (2000) Genome-wide location and function of DNA binding proteins. Science 290: 2306-2309 (Pubitemid 32041573)
55. Roguev A, Bandyopadhyay S, Zofall M, Zhang K, Fischer T, Collins SR, Qu H, Shales M, Park HO, Hayles J, Hoe KL, Kim DU, Ideker T, Grewal SI, Weissman JS, Krogan NJ (2008) Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast. Science 322: 405-410
56. Roguev A,Wiren M,Weissman JS, Krogan NJ (2007) High-throughput genetic interactionmapping in the fission yeast Schizosaccharomyces pombe. Nature Methods 4: 861-866 (Pubitemid 350055586)
57. Sauer U (2004) High-throughput phenomics: experimental methods for mapping fluxomes. Curr Opin Biotechnol 15: 58-63 (Pubitemid 38224251)
58. Schena M, Shalon D, Davis RW, Brown PO (1995) Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270: 467-470
59. Schmidt D, Wilson MD, Ballester B, Schwalie PC, Brown GD, Marshall A, Kutter C, Watt S, Martinez-Jimenez CP, Mackay S, Talianidis I, Flicek P, Odom DT (2010) Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding. Science 328: 1036-1040
60. Schuldiner M, Collins SR, Thompson NJ, Denic V, Bhamidipati A, Punna T, Ihmels J, Andrews B, Boone C, Greenblatt JF, Weissman JS, Krogan NJ (2005) Exploration of the function and organization of the yeast early secretory pathway through an epistatic miniarray profile. Cell 123: 507-519 (Pubitemid 41546679)
61. Sharan R, Suthram S, Kelley RM, Kuhn T, McCuine S, Uetz P, Sittler T, Karp RM, Ideker T (2005) Conserved patterns of protein interaction in multiple species. Proc Natl Acad Sci USA 102: 1974-1979 (Pubitemid 40261997)
62. Sowa ME, Bennett EJ, Gygi SP, Harper JW (2009) Defining the human deubiquitinating enzyme interaction landscape. Cell 138: 389-403
63. Spitzer M, Griffiths E, Blakely KM, Wildenhain J, Ejim L, Rossi L, De Pascale G, Curak J, Brown E, Tyers M, Wright GD (2011) Crossspecies discovery of syncretic drug combinations that potentiate the antifungal fluconazole. Mol Syst Biol 7: 499
64. Stark C, Breitkreutz BJ, Chatr-Aryamontri A, Boucher L, Oughtred R, Livstone MS, Nixon J, Van Auken K,Wang X, Shi X, Reguly T, Rust JM, Winter A, Dolinski K, Tyers M (2011) The BioGRID Interaction Database: 2011 update. Nucleic Acids Res 39: D698-D704
65. Steffen M, Petti A, Aach J, D'Haeseleer P, Church G (2002) Automated modelling of signal transduction networks. BMC Bioinformatics 3: 34
66. Stelzl U, Worm U, Lalowski M, Haenig C, Brembeck FH, Goehler H, Stroedicke M, Zenkner M, Schoenherr A, Koeppen S, Timm J, Mintzlaff S, Abraham C, Bock N, Kietzmann S, Goedde A, Toksoz E, Droege A, Krobitsch S, Korn B et al (2005) A human protein-protein interaction network: a resource for annotating the proteome. Cell 122: 957-968 (Pubitemid 41345212)
67. St Onge RP, Mani R, Oh J, Proctor M, Fung E, Davis RW, NislowC, Roth FP, Giaever G (2007) Systematic pathway analysis using highresolution fitness profiling of combinatorial gene deletions. Nat Genet 39: 199-206 (Pubitemid 46184350)
68. Tan CS, Bodenmiller B, Pasculescu A, Jovanovic M, Hengartner MO, Jorgensen C, Bader GD, Aebersold R, Pawson T, Linding R (2009) Comparative analysis reveals conserved protein phosphorylation networks implicated in multiple diseases. Sci Signal 2: ra39
69. Tarassov K, Messier V, Landry CR, Radinovic S, Serna Molina MM, Shames I, Malitskaya Y, Vogel J, Bussey H, Michnick SW (2008) An in vivo map of the yeast protein interactome. Science 320: 1465-1470 (Pubitemid 351929421)
70. Taylor IW, Linding R,Warde-Farley D, Liu Y, Pesquita C, Faria D, Bull S, Pawson T, Morris Q, Wrana JL (2009) Dynamic modularity in protein interaction networks predicts breast cancer outcome. Nat Biotechnol 27: 199-204
71. 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 (2001) Systematic genetic analysis with ordered arrays of yeast deletion mutants. Science 294: 2364-2368 (Pubitemid 33140562)
72. Tsong AE, Miller MG, Raisner RM, Johnson AD (2003) Evolution of a combinatorial transcriptional circuit: a case study in yeasts. Cell 115: 389-399 (Pubitemid 37456802)
73. Tuch BB, Galgoczy DJ, Hernday AD, Li H, Johnson AD (2008) The evolution of combinatorial gene regulation in fungi. PLoS Biol 6: e38
74. Typas A, Nichols RJ, Siegele DA, Shales M, Collins SR, Lim B, Braberg H, Yamamoto N, Takeuchi R, Wanner BL, Mori H, Weissman JS, Krogan NJ, Gross CA (2008) High-throughput, quantitative analyses of genetic interactions in E. coli. Nature Methods 5: 781-787
75. Warde-Farley D, Donaldson SL, Comes O, Zuberi K, Badrawi R, Chao P, Franz M, Grouios C, Kazi F, Lopes CT, Maitland A, Mostafavi S, Montojo J, Shao Q, Wright G, Bader GD, Morris Q (2010) The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function. Nucleic Acids Res 38: W214-W220
76. Wilmes GM, Bergkessel M, Bandyopadhyay S, Shales M, Braberg H, Cagney G, Collins SR, Whitworth GB, Kress TL, Weissman JS, Ideker T, Guthrie C, Krogan NJ (2008) A genetic interaction map of RNA-processing factors reveals links between Sem1/Dss1- containing complexes and mRNA export and splicing. Mol Cell 32: 735-746
77. Winzeler EA, Shoemaker DD, Astromoff A, Liang H, Anderson K, Andre B, Bangham R, Benito R, Boeke JD, Bussey H, Chu AM, Connelly C, Davis K, Dietrich F, Dow SW, El Bakkoury M, Foury F, Friend SH, Gentalen E, Giaever G et al (1999) Functional characterization of the S. cerevisiae genome by gene deletion and parallel analysis. Science 285: 901-906 (Pubitemid 29381993)
78. Workman CT, Mak HC, McCuine S, Tagne JB, Agarwal M, Ozier O, Begley TJ, Samson LD, Ideker T (2006) A systems approach to mapping DNA damage response pathways. Science 312: 1054-1059
79. Xenarios I, Salwinski L, Duan XJ, Higney P, Kim SM, Eisenberg D (2002) DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions. Nucleic Acids es 30: 303-305 (Pubitemid 34679570)
80. Yu H, Braun P, Yildirim MA, Lemmens I, Venkatesan K, Sahalie J, Hirozane-Kishikawa T, Gebreab F, Li N, Simonis N, Hao T, Rual JF, Dricot A, Vazquez A, Murray RR, Simon C, Tardivo L, Tam S, Svrzikapa N, Fan C et al (2008) High-quality binary protein interaction map of the yeast interactome network. Science 322: 104-110
81. Yu H, Luscombe NM, Lu HX, Zhu X, Xia Y, Han JD, Bertin N, Chung S, Vidal M, Gerstein M (2004) Annotation transfer between genomes: protein-protein interologs and protein-DNA regulogs. Genome Res 14: 1107-1118 (Pubitemid 38811547)
82. Zhao R, Davey M, Hsu YC, Kaplanek P, Tong A, Parsons AB, Krogan N, Cagney G, Mai D, Greenblatt J, Boone C, Emili A, HouryWA (2005) Navigating the chaperone network: an integrative map of physical and genetic interactions mediated by the hsp90 chaperone. Cell 120: 715-727 (Pubitemid 40343082)
83. Zhong Q, Simonis N, Li QR, Charloteaux B, Heuze F, Klitgord N, Tam S, Yu H, Venkatesan K, Mou D, Swearingen V, Yildirim MA, Yan H, Dricot A, Szeto D, Lin C, Hao T, Fan C, Milstein S, Dupuy D et al (2009) Edgetic perturbation models of human inherited disorders. Mol Syst Biol 5: 321