Harvard Catalyst Profiles

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Marc Vidal, PH.D.

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Research
The research activities and funding listed below are automatically derived from NIH ExPORTER and other sources, which might result in incorrect or missing items. Faculty can login to make corrections and additions.
  1. U01CA232161 (VIDAL, MARC) Sep 17, 2018 - Aug 31, 2023
    NIH/NCI
    Rewiring of regulatory networks in breast cancer by transcription factor isoforms
    Role: Principal Investigator
  2. R01HG006061 (VIDAL, MARC) Feb 17, 2011 - Nov 30, 2014
    NIH/NHGRI
    A S. cerevisiae high-coverage high-quality protein-protein binary interactome map
    Role: Co-Principal Investigator
  3. RC4HG006066 (HAO, TONG) Sep 27, 2010 - Sep 30, 2013
    NIH/NHGRI
    Generation and validation of a comprehensive human disease mutant ORF resource
    Role: Co-Principal Investigator
  4. R33CA132073 (VIDAL, MARC) Jun 5, 2008 - May 31, 2012
    NIH/NCI
    Application of Technologies for Interactome Network Analyses of Cancer Mutations
    Role: Principal Investigator
  5. R01ES015728 (VIDAL, MARC) Sep 10, 2007 - Mar 31, 2012
    NIH/NIEHS
    Rewiring Pathways and Networks by Environmental Perturbations
    Role: Principal Investigator

Bibliographic
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
  1. Alonso-López D, Campos-Laborie FJ, Gutiérrez MA, Lambourne L, Calderwood MA, Vidal M, De Las Rivas J. APID database: redefining protein-protein interaction experimental evidences and binary interactomes. Database (Oxford). 2019 01 01; 2019. PMID: 30715274.
    Citations:    
  2. Sharma A, Halu A, Decano JL, Padi M, Liu YY, Prasad RB, Fadista J, Santolini M, Menche J, Weiss ST, Vidal M, Silverman EK, Aikawa M, Barabási AL, Groop L, Loscalzo J. Controllability in an islet specific regulatory network identifies the transcriptional factor NFATC4, which regulates Type 2 Diabetes associated genes. NPJ Syst Biol Appl. 2018; 4:25. PMID: 29977601.
    Citations:    
  3. Aebersold R, Agar JN, Amster IJ, Baker MS, Bertozzi CR, Boja ES, Costello CE, Cravatt BF, Fenselau C, Garcia BA, Ge Y, Gunawardena J, Hendrickson RC, Hergenrother PJ, Huber CG, Ivanov AR, Jensen ON, Jewett MC, Kelleher NL, Kiessling LL, Krogan NJ, Larsen MR, Loo JA, Ogorzalek Loo RR, Lundberg E, MacCoss MJ, Mallick P, Mootha VK, Mrksich M, Muir TW, Patrie SM, Pesavento JJ, Pitteri SJ, Rodriguez H, Saghatelian A, Sandoval W, Schlüter H, Sechi S, Slavoff SA, Smith LM, Snyder MP, Thomas PM, Uhlén M, Van Eyk JE, Vidal M, Walt DR, White FM, Williams ER, Wohlschlager T, Wysocki VH, Yates NA, Young NL, Zhang B. How many human proteoforms are there? Nat Chem Biol. 2018 Feb 14; 14(3):206-214. PMID: 29443976.
    Citations: 9     Fields:    
  4. Martínez-Noël G, Luck K, Kühnle S, Desbuleux A, Szajner P, Galligan JT, Rodriguez D, Zheng L, Boyland K, Leclere F, Zhong Q, Hill DE, Vidal M, Howley PM. Network Analysis of UBE3A/E6AP-Associated Proteins Provides Connections to Several Distinct Cellular Processes. J Mol Biol. 2018 Mar 30; 430(7):1024-1050. PMID: 29426014.
    Citations: 1     Fields:    
  5. Choi SG, Richardson A, Lambourne L, Hill DE, Vidal M. Protein Interactomics by Two-Hybrid Methods. Methods Mol Biol. 2018; 1794:1-14. PMID: 29855947.
    Citations:    Fields:    
  6. Weile J, Sun S, Cote AG, Knapp J, Verby M, Mellor JC, Wu Y, Pons C, Wong C, van Lieshout N, Yang F, Tasan M, Tan G, Yang S, Fowler DM, Nussbaum R, Bloom JD, Vidal M, Hill DE, Aloy P, Roth FP. A framework for exhaustively mapping functional missense variants. Mol Syst Biol. 2017 12 21; 13(12):957. PMID: 29269382.
    Citations: 2     Fields:    Translation:Humans
  7. Carter AC, Chang HY, Church G, Dombkowski A, Ecker JR, Gil E, Giresi PG, Greely H, Greenleaf WJ, Hacohen N, He C, Hill D, Ko J, Kohane I, Kundaje A, Palmer M, Snyder MP, Tung J, Urban A, Vidal M, Wong W. Challenges and recommendations for epigenomics in precision health. Nat Biotechnol. 2017 12 08; 35(12):1128-1132. PMID: 29220033.
    Citations:    Fields:    
  8. Ghadie MA, Lambourne L, Vidal M, Xia Y. Domain-based prediction of the human isoform interactome provides insights into the functional impact of alternative splicing. PLoS Comput Biol. 2017 Aug; 13(8):e1005717. PMID: 28846689.
    Citations:    Fields:    Translation:HumansCells
  9. Jo M, Chung AY, Yachie N, Seo M, Jeon H, Nam Y, Seo Y, Kim E, Zhong Q, Vidal M, Park HC, Roth FP, Suk K. Yeast genetic interaction screen of human genes associated with amyotrophic lateral sclerosis: identification of MAP2K5 kinase as a potential drug target. Genome Res. 2017 09; 27(9):1487-1500. PMID: 28596290.
    Citations: 2     Fields:    Translation:HumansAnimals
  10. Yao C, Joehanes R, Johnson AD, Huan T, Liu C, Freedman JE, Munson PJ, Hill DE, Vidal M, Levy D. Dynamic Role of trans Regulation of Gene Expression in Relation to Complex Traits. Am J Hum Genet. 2017 06 01; 100(6):985-986. PMID: 28575653.
    Citations: 1     Fields:    
  11. Yang F, Sun S, Tan G, Costanzo M, Hill DE, Vidal M, Andrews BJ, Boone C, Roth FP. Identifying pathogenicity of human variants via paralog-based yeast complementation. PLoS Genet. 2017 May; 13(5):e1006779. PMID: 28542158.
    Citations:    Fields:    Translation:HumansAnimals
  12. Yao C, Joehanes R, Johnson AD, Huan T, Liu C, Freedman JE, Munson PJ, Hill DE, Vidal M, Levy D. Dynamic Role of trans Regulation of Gene Expression in Relation to Complex Traits. Am J Hum Genet. 2017 Apr 06; 100(4):571-580. PMID: 28285768.
    Citations: 7     Fields:    Translation:Humans
  13. Luck K, Sheynkman GM, Zhang I, Vidal M. Proteome-Scale Human Interactomics. Trends Biochem Sci. 2017 05; 42(5):342-354. PMID: 28284537.
    Citations: 7     Fields:    Translation:HumansCells
  14. Karras GI, Yi S, Sahni N, Fischer M, Xie J, Vidal M, D'Andrea AD, Whitesell L, Lindquist S. HSP90 Shapes the Consequences of Human Genetic Variation. Cell. 2017 Feb 23; 168(5):856-866.e12. PMID: 28215707.
    Citations: 9     Fields:    Translation:HumansCells
  15. Chung CY, Khurana V, Yi S, Sahni N, Loh KH, Auluck PK, Baru V, Udeshi ND, Freyzon Y, Carr SA, Hill DE, Vidal M, Ting AY, Lindquist S. In Situ Peroxidase Labeling and Mass-Spectrometry Connects Alpha-Synuclein Directly to Endocytic Trafficking and mRNA Metabolism in Neurons. Cell Syst. 2017 Feb 22; 4(2):242-250.e4. PMID: 28131823.
    Citations: 9     Fields:    
  16. Khurana V, Peng J, Chung CY, Auluck PK, Fanning S, Tardiff DF, Bartels T, Koeva M, Eichhorn SW, Benyamini H, Lou Y, Nutter-Upham A, Baru V, Freyzon Y, Tuncbag N, Costanzo M, San Luis BJ, Schöndorf DC, Barrasa MI, Ehsani S, Sanjana N, Zhong Q, Gasser T, Bartel DP, Vidal M, Deleidi M, Boone C, Fraenkel E, Berger B, Lindquist S. Genome-Scale Networks Link Neurodegenerative Disease Genes to a-Synuclein through Specific Molecular Pathways. Cell Syst. 2017 Feb 22; 4(2):157-170.e14. PMID: 28131822.
    Citations: 11     Fields:    
  17. Lievens S, Van der Heyden J, Masschaele D, De Ceuninck L, Petta I, Gupta S, De Puysseleyr V, Vauthier V, Lemmens I, De Clercq DJ, Defever D, Vanderroost N, De Smet AS, Eyckerman S, Van Calenbergh S, Martens L, De Bosscher K, Libert C, Hill DE, Vidal M, Tavernier J. Proteome-scale Binary Interactomics in Human Cells. Mol Cell Proteomics. 2016 Dec; 15(12):3624-3639. PMID: 27803151.
    Citations: 3     Fields:    Translation:HumansCells
  18. Vidal M. Playing Hide-and-Seek with Yeast. Cell. 2016 Aug 25; 166(5):1069-1073. PMID: 27565335.
    Citations:    Fields:    Translation:Animals
  19. Yazaki J, Galli M, Kim AY, Nito K, Aleman F, Chang KN, Carvunis AR, Quan R, Nguyen H, Song L, Alvarez JM, Huang SS, Chen H, Ramachandran N, Altmann S, Gutiérrez RA, Hill DE, Schroeder JI, Chory J, LaBaer J, Vidal M, Braun P, Ecker JR. Mapping transcription factor interactome networks using HaloTag protein arrays. Proc Natl Acad Sci U S A. 2016 07 19; 113(29):E4238-47. PMID: 27357687; PMCID: PMC4961138.
    Citations: 8     Fields:    Translation:Animals
  20. Rambout X, Detiffe C, Bruyr J, Mariavelle E, Cherkaoui M, Brohée S, Demoitié P, Lebrun M, Soin R, Lesage B, Guedri K, Beullens M, Bollen M, Farazi TA, Kettmann R, Struman I, Hill DE, Vidal M, Kruys V, Simonis N, Twizere JC, Dequiedt F. The transcription factor ERG recruits CCR4-NOT to control mRNA decay and mitotic progression. Nat Struct Mol Biol. 2016 07; 23(7):663-72. PMID: 27273514.
    Citations: 1     Fields:    Translation:HumansCells
  21. Vidal M. How much of the human protein interactome remains to be mapped? Sci Signal. 2016 05 10; 9(427):eg7. PMID: 27165778.
    Citations:    Fields:    Translation:HumansAnimalsCells
  22. Yachie N, Petsalaki E, Mellor JC, Weile J, Jacob Y, Verby M, Ozturk SB, Li S, Cote AG, Mosca R, Knapp JJ, Ko M, Yu A, Gebbia M, Sahni N, Yi S, Tyagi T, Sheykhkarimli D, Roth JF, Wong C, Musa L, Snider J, Liu YC, Yu H, Braun P, Stagljar I, Hao T, Calderwood MA, Pelletier L, Aloy P, Hill DE, Vidal M, Roth FP. Pooled-matrix protein interaction screens using Barcode Fusion Genetics. Mol Syst Biol. 2016 Apr 22; 12(4):863. PMID: 27107012.
    Citations: 14     Fields:    Translation:HumansAnimalsCells
  23. Zhong Q, Pevzner SJ, Hao T, Wang Y, Mosca R, Menche J, Taipale M, Tasan M, Fan C, Yang X, Haley P, Murray RR, Mer F, Gebreab F, Tam S, MacWilliams A, Dricot A, Reichert P, Santhanam B, Ghamsari L, Calderwood MA, Rolland T, Charloteaux B, Lindquist S, Barabási AL, Hill DE, Aloy P, Cusick ME, Xia Y, Roth FP, Vidal M. An inter-species protein-protein interaction network across vast evolutionary distance. Mol Syst Biol. 2016 Apr 22; 12(4):865. PMID: 27107014; PMCID: PMC4848758.
    Citations: 4     Fields:    Translation:Humans
  24. Barrera LA, Vedenko A, Kurland JV, Rogers JM, Gisselbrecht SS, Rossin EJ, Woodard J, Mariani L, Kock KH, Inukai S, Siggers T, Shokri L, Gordân R, Sahni N, Cotsapas C, Hao T, Yi S, Kellis M, Daly MJ, Vidal M, Hill DE, Bulyk ML. Survey of variation in human transcription factors reveals prevalent DNA binding changes. Science. 2016 Mar 25; 351(6280):1450-1454. PMID: 27013732; PMCID: PMC4825693.
    Citations: 27     Fields:    Translation:HumansCells
  25. Sun S, Yang F, Tan G, Costanzo M, Oughtred R, Hirschman J, Theesfeld CL, Bansal P, Sahni N, Yi S, Yu A, Tyagi T, Tie C, Hill DE, Vidal M, Andrews BJ, Boone C, Dolinski K, Roth FP. An extended set of yeast-based functional assays accurately identifies human disease mutations. Genome Res. 2016 05; 26(5):670-80. PMID: 26975778.
    Citations: 16     Fields:    Translation:HumansAnimalsCells
  26. Chiu CN, Rihel J, Lee DA, Singh C, Mosser EA, Chen S, Sapin V, Pham U, Engle J, Niles BJ, Montz CJ, Chakravarthy S, Zimmerman S, Salehi-Ashtiani K, Vidal M, Schier AF, Prober DA. A Zebrafish Genetic Screen Identifies Neuromedin U as a Regulator of Sleep/Wake States. Neuron. 2016 Feb 17; 89(4):842-56. PMID: 26889812; PMCID: PMC4851465.
    Citations: 8     Fields:    Translation:HumansAnimalsCells
  27. Yang X, Coulombe-Huntington J, Kang S, Sheynkman GM, Hao T, Richardson A, Sun S, Yang F, Shen YA, Murray RR, Spirohn K, Begg BE, Duran-Frigola M, MacWilliams A, Pevzner SJ, Zhong Q, Trigg SA, Tam S, Ghamsari L, Sahni N, Yi S, Rodriguez MD, Balcha D, Tan G, Costanzo M, Andrews B, Boone C, Zhou XJ, Salehi-Ashtiani K, Charloteaux B, Chen AA, Calderwood MA, Aloy P, Roth FP, Hill DE, Iakoucheva LM, Xia Y, Vidal M. Widespread Expansion of Protein Interaction Capabilities by Alternative Splicing. Cell. 2016 Feb 11; 164(4):805-17. PMID: 26871637; PMCID: PMC4882190.
    Citations: 53     Fields:    Translation:HumansAnimalsCells
  28. Guney E, Menche J, Vidal M, Barábasi AL. Network-based in silico drug efficacy screening. Nat Commun. 2016 Feb 01; 7:10331. PMID: 26831545; PMCID: PMC4740350.
    Citations: 31     Fields:    Translation:Cells
  29. Neupane M, Clark AP, Landini S, Birkbak NJ, Eklund AC, Lim E, Culhane AC, Barry WT, Schumacher SE, Beroukhim R, Szallasi Z, Vidal M, Hill DE, Silver DP. MECP2 Is a Frequently Amplified Oncogene with a Novel Epigenetic Mechanism That Mimics the Role of Activated RAS in Malignancy. Cancer Discov. 2016 Jan; 6(1):45-58. PMID: 26546296; PMCID: PMC4775099.
    Citations: 8     Fields:    Translation:HumansAnimalsCells
  30. Wang Y, Sahni N, Vidal M. Global Edgetic Rewiring in Cancer Networks. Cell Syst. 2015 Oct 28; 1(4):251-3. PMID: 27136053.
    Citations: 2     Fields:    
  31. Sahni N, Yi S, Taipale M, Fuxman Bass JI, Coulombe-Huntington J, Yang F, Peng J, Weile J, Karras GI, Wang Y, Kovács IA, Kamburov A, Krykbaeva I, Lam MH, Tucker G, Khurana V, Sharma A, Liu YY, Yachie N, Zhong Q, Shen Y, Palagi A, San-Miguel A, Fan C, Balcha D, Dricot A, Jordan DM, Walsh JM, Shah AA, Yang X, Stoyanova AK, Leighton A, Calderwood MA, Jacob Y, Cusick ME, Salehi-Ashtiani K, Whitesell LJ, Sunyaev S, Berger B, Barabási AL, Charloteaux B, Hill DE, Hao T, Roth FP, Xia Y, Walhout AJM, Lindquist S, Vidal M. Widespread macromolecular interaction perturbations in human genetic disorders. Cell. 2015 Apr 23; 161(3):647-660. PMID: 25910212; PMCID: PMC4441215.
    Citations: 76     Fields:    Translation:HumansCells
  32. Fuxman Bass JI, Sahni N, Shrestha S, Garcia-Gonzalez A, Mori A, Bhat N, Yi S, Hill DE, Vidal M, Walhout AJM. Human gene-centered transcription factor networks for enhancers and disease variants. Cell. 2015 Apr 23; 161(3):661-673. PMID: 25910213; PMCID: PMC4409666.
    Citations: 24     Fields:    Translation:HumansCells
  33. Yang F, Petsalaki E, Rolland T, Hill DE, Vidal M, Roth FP. Protein domain-level landscape of cancer-type-specific somatic mutations. PLoS Comput Biol. 2015 Mar; 11(3):e1004147. PMID: 25794154; PMCID: PMC4368709.
    Citations: 12     Fields:    Translation:HumansCells
  34. Menche J, Sharma A, Kitsak M, Ghiassian SD, Vidal M, Loscalzo J, Barabási AL. Disease networks. Uncovering disease-disease relationships through the incomplete interactome. Science. 2015 Feb 20; 347(6224):1257601. PMID: 25700523; PMCID: PMC4435741.
    Citations: 164     Fields:    Translation:Humans
  35. Sharma A, Menche J, Huang CC, Ort T, Zhou X, Kitsak M, Sahni N, Thibault D, Voung L, Guo F, Ghiassian SD, Gulbahce N, Baribaud F, Tocker J, Dobrin R, Barnathan E, Liu H, Panettieri RA, Tantisira KG, Qiu W, Raby BA, Silverman EK, Vidal M, Weiss ST, Barabási AL. A disease module in the interactome explains disease heterogeneity, drug response and captures novel pathways and genes in asthma. Hum Mol Genet. 2015 Jun 01; 24(11):3005-20. PMID: 25586491; PMCID: PMC4447811.
    Citations: 24     Fields:    Translation:HumansCells
  36. Tasan M, Musso G, Hao T, Vidal M, MacRae CA, Roth FP. Selecting causal genes from genome-wide association studies via functionally coherent subnetworks. Nat Methods. 2015 Feb; 12(2):154-9. PMID: 25532137; PMCID: PMC4480866.
    Citations: 19     Fields:    Translation:HumansAnimals
  37. Vidal M, Fields S. The yeast two-hybrid assay: still finding connections after 25 years. Nat Methods. 2014 Dec; 11(12):1203-6. PMID: 25584376.
    Citations: 12     Fields:    Translation:HumansAnimals
  38. Rolland T, Tasan M, Charloteaux B, Pevzner SJ, Zhong Q, Sahni N, Yi S, Lemmens I, Fontanillo C, Mosca R, Kamburov A, Ghiassian SD, Yang X, Ghamsari L, Balcha D, Begg BE, Braun P, Brehme M, Broly MP, Carvunis AR, Convery-Zupan D, Corominas R, Coulombe-Huntington J, Dann E, Dreze M, Dricot A, Fan C, Franzosa E, Gebreab F, Gutierrez BJ, Hardy MF, Jin M, Kang S, Kiros R, Lin GN, Luck K, MacWilliams A, Menche J, Murray RR, Palagi A, Poulin MM, Rambout X, Rasla J, Reichert P, Romero V, Ruyssinck E, Sahalie JM, Scholz A, Shah AA, Sharma A, Shen Y, Spirohn K, Tam S, Tejeda AO, Trigg SA, Twizere JC, Vega K, Walsh J, Cusick ME, Xia Y, Barabási AL, Iakoucheva LM, Aloy P, De Las Rivas J, Tavernier J, Calderwood MA, Hill DE, Hao T, Roth FP, Vidal M. A proteome-scale map of the human interactome network. Cell. 2014 Nov 20; 159(5):1212-1226. PMID: 25416956; PMCID: PMC4266588.
    Citations: 258     Fields:    Translation:HumansAnimals
  39. Brehme M, Voisine C, Rolland T, Wachi S, Soper JH, Zhu Y, Orton K, Villella A, Garza D, Vidal M, Ge H, Morimoto RI. A chaperome subnetwork safeguards proteostasis in aging and neurodegenerative disease. Cell Rep. 2014 Nov 06; 9(3):1135-50. PMID: 25437566; PMCID: PMC4255334.
    Citations: 71     Fields:    Translation:HumansAnimalsCells
  40. Gu L, Li C, Aach J, Hill DE, Vidal M, Church GM. Multiplex single-molecule interaction profiling of DNA-barcoded proteins. Nature. 2014 Nov 27; 515(7528):554-7. PMID: 25252978; PMCID: PMC4246050.
    Citations: 11     Fields:    Translation:Cells
  41. Weßling R, Epple P, Altmann S, He Y, Yang L, Henz SR, McDonald N, Wiley K, Bader KC, Gläßer C, Mukhtar MS, Haigis S, Ghamsari L, Stephens AE, Ecker JR, Vidal M, Jones JD, Mayer KF, Ver Loren van Themaat E, Weigel D, Schulze-Lefert P, Dangl JL, Panstruga R, Braun P. Convergent targeting of a common host protein-network by pathogen effectors from three kingdoms of life. Cell Host Microbe. 2014 Sep 10; 16(3):364-75. PMID: 25211078; PMCID: PMC4191710.
    Citations: 50     Fields:    Translation:AnimalsCells
  42. Hill SJ, Rolland T, Adelmant G, Xia X, Owen MS, Dricot A, Zack TI, Sahni N, Jacob Y, Hao T, McKinney KM, Clark AP, Reyon D, Tsai SQ, Joung JK, Beroukhim R, Marto JA, Vidal M, Gaudet S, Hill DE, Livingston DM. Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage. Genes Dev. 2014 Sep 01; 28(17):1957-75. PMID: 25184681; PMCID: PMC4197947.
    Citations: 21     Fields:    Translation:HumansCells
  43. Corominas R, Yang X, Lin GN, Kang S, Shen Y, Ghamsari L, Broly M, Rodriguez M, Tam S, Trigg SA, Fan C, Yi S, Tasan M, Lemmens I, Kuang X, Zhao N, Malhotra D, Michaelson JJ, Vacic V, Calderwood MA, Roth FP, Tavernier J, Horvath S, Salehi-Ashtiani K, Korkin D, Sebat J, Hill DE, Hao T, Vidal M, Iakoucheva LM. Protein interaction network of alternatively spliced isoforms from brain links genetic risk factors for autism. Nat Commun. 2014 Apr 11; 5:3650. PMID: 24722188; PMCID: PMC3996537.
    Citations: 38     Fields:    Translation:HumansCells
  44. Dittmer TA, Sahni N, Kubben N, Hill DE, Vidal M, Burgess RC, Roukos V, Misteli T. Systematic identification of pathological lamin A interactors. Mol Biol Cell. 2014 May; 25(9):1493-510. PMID: 24623722; PMCID: PMC4004598.
    Citations: 15     Fields:    Translation:HumansCells
  45. Sahni N, Yi S, Zhong Q, Jailkhani N, Charloteaux B, Cusick ME, Vidal M. Edgotype: a fundamental link between genotype and phenotype. Curr Opin Genet Dev. 2013 Dec; 23(6):649-57. PMID: 24287335; PMCID: PMC3902775.
    Citations: 30     Fields:    Translation:HumansCells
  46. Mehra A, Zahra A, Thompson V, Sirisaengtaksin N, Wells A, Porto M, Köster S, Penberthy K, Kubota Y, Dricot A, Rogan D, Vidal M, Hill DE, Bean AJ, Philips JA. Mycobacterium tuberculosis type VII secreted effector EsxH targets host ESCRT to impair trafficking. PLoS Pathog. 2013 Oct; 9(10):e1003734. PMID: 24204276; PMCID: PMC3814348.
    Citations: 36     Fields:    Translation:HumansAnimalsCells
  47. Lambert JP, Ivosev G, Couzens AL, Larsen B, Taipale M, Lin ZY, Zhong Q, Lindquist S, Vidal M, Aebersold R, Pawson T, Bonner R, Tate S, Gingras AC. Mapping differential interactomes by affinity purification coupled with data-independent mass spectrometry acquisition. Nat Methods. 2013 Dec; 10(12):1239-45. PMID: 24162924; PMCID: PMC3882083.
    Citations: 55     Fields:    Translation:Humans
  48. Xin X, Gfeller D, Cheng J, Tonikian R, Sun L, Guo A, Lopez L, Pavlenco A, Akintobi A, Zhang Y, Rual JF, Currell B, Seshagiri S, Hao T, Yang X, Shen YA, Salehi-Ashtiani K, Li J, Cheng AT, Bouamalay D, Lugari A, Hill DE, Grimes ML, Drubin DG, Grant BD, Vidal M, Boone C, Sidhu SS, Bader GD. SH3 interactome conserves general function over specific form. Mol Syst Biol. 2013; 9:652. PMID: 23549480.
    Citations: 20     Fields:    Translation:AnimalsCells
  49. Lambert B, Vandeputte J, Remacle S, Bergiers I, Simonis N, Twizere JC, Vidal M, Rezsohazy R. Protein interactions of the transcription factor Hoxa1. BMC Dev Biol. 2012 Oct 22; 12:29. PMID: 23088713; PMCID: PMC3514159.
    Citations: 10     Fields:    Translation:HumansAnimalsCells
  50. Fine DA, Rozenblatt-Rosen O, Padi M, Korkhin A, James RL, Adelmant G, Yoon R, Guo L, Berrios C, Zhang Y, Calderwood MA, Velmurgan S, Cheng J, Marto JA, Hill DE, Cusick ME, Vidal M, Florens L, Washburn MP, Litovchick L, DeCaprio JA. Identification of FAM111A as an SV40 host range restriction and adenovirus helper factor. PLoS Pathog. 2012; 8(10):e1002949. PMID: 23093934; PMCID: PMC3475652.
    Citations: 13     Fields:    Translation:HumansAnimalsCells
  51. Neveu G, Cassonnet P, Vidalain PO, Rolloy C, Mendoza J, Jones L, Tangy F, Muller M, Demeret C, Tafforeau L, Lotteau V, Rabourdin-Combe C, Travé G, Dricot A, Hill DE, Vidal M, Favre M, Jacob Y. Comparative analysis of virus-host interactomes with a mammalian high-throughput protein complementation assay based on Gaussia princeps luciferase. Methods. 2012 Dec; 58(4):349-59. PMID: 22898364; PMCID: PMC3546263.
    Citations: 18     Fields:    Translation:HumansAnimalsCells
  52. Rozenblatt-Rosen O, Deo RC, Padi M, Adelmant G, Calderwood MA, Rolland T, Grace M, Dricot A, Askenazi M, Tavares M, Pevzner SJ, Abderazzaq F, Byrdsong D, Carvunis AR, Chen AA, Cheng J, Correll M, Duarte M, Fan C, Feltkamp MC, Ficarro SB, Franchi R, Garg BK, Gulbahce N, Hao T, Holthaus AM, James R, Korkhin A, Litovchick L, Mar JC, Pak TR, Rabello S, Rubio R, Shen Y, Singh S, Spangle JM, Tasan M, Wanamaker S, Webber JT, Roecklein-Canfield J, Johannsen E, Barabási AL, Beroukhim R, Kieff E, Cusick ME, Hill DE, Münger K, Marto JA, Quackenbush J, Roth FP, DeCaprio JA, Vidal M. Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins. Nature. 2012 Jul 26; 487(7408):491-5. PMID: 22810586; PMCID: PMC3408847.
    Citations: 134     Fields:    Translation:HumansCells
  53. Carvunis AR, Rolland T, Wapinski I, Calderwood MA, Yildirim MA, Simonis N, Charloteaux B, Hidalgo CA, Barbette J, Santhanam B, Brar GA, Weissman JS, Regev A, Thierry-Mieg N, Cusick ME, Vidal M. Proto-genes and de novo gene birth. Nature. 2012 Jul 19; 487(7407):370-4. PMID: 22722833; PMCID: PMC3401362.
    Citations: 146     Fields:    Translation:AnimalsCells
  54. Vidal M, Chan DW, Gerstein M, Mann M, Omenn GS, Tagle D, Sechi S. The human proteome - a scientific opportunity for transforming diagnostics, therapeutics, and healthcare. Clin Proteomics. 2012 Jul 03; 9(1):6. PMID: 22583803; PMCID: PMC3388576.
    Citations: 12     
  55. Gulbahce N, Yan H, Dricot A, Padi M, Byrdsong D, Franchi R, Lee DS, Rozenblatt-Rosen O, Mar JC, Calderwood MA, Baldwin A, Zhao B, Santhanam B, Braun P, Simonis N, Huh KW, Hellner K, Grace M, Chen A, Rubio R, Marto JA, Christakis NA, Kieff E, Roth FP, Roecklein-Canfield J, Decaprio JA, Cusick ME, Quackenbush J, Hill DE, Münger K, Vidal M, Barabási AL. Viral perturbations of host networks reflect disease etiology. PLoS Comput Biol. 2012; 8(6):e1002531. PMID: 22761553; PMCID: PMC3386155.
    Citations: 46     Fields:    Translation:HumansCells
  56. Baas D, Caussanel-Boude S, Guiraud A, Calhabeu F, Delaune E, Pilot F, Chopin E, Machuca-Gayet I, Vernay A, Bertrand S, Rual JF, Jurdic P, Hill DE, Vidal M, Schaeffer L, Goillot E. CKIP-1 regulates mammalian and zebrafish myoblast fusion. J Cell Sci. 2012 Aug 15; 125(Pt 16):3790-800. PMID: 22553210.
    Citations: 4     Fields:    Translation:HumansAnimalsCells
  57. Simonis N, Rual JF, Lemmens I, Boxus M, Hirozane-Kishikawa T, Gatot JS, Dricot A, Hao T, Vertommen D, Legros S, Daakour S, Klitgord N, Martin M, Willaert JF, Dequiedt F, Navratil V, Cusick ME, Burny A, Van Lint C, Hill DE, Tavernier J, Kettmann R, Vidal M, Twizere JC. Host-pathogen interactome mapping for HTLV-1 and -2 retroviruses. Retrovirology. 2012 Mar 29; 9:26. PMID: 22458338; PMCID: PMC3351729.
    Citations: 34     Fields:    Translation:HumansCells
  58. Djebali S, Lagarde J, Kapranov P, Lacroix V, Borel C, Mudge JM, Howald C, Foissac S, Ucla C, Chrast J, Ribeca P, Martin D, Murray RR, Yang X, Ghamsari L, Lin C, Bell I, Dumais E, Drenkow J, Tress ML, Gelpí JL, Orozco M, Valencia A, van Berkum NL, Lajoie BR, Vidal M, Stamatoyannopoulos J, Batut P, Dobin A, Harrow J, Hubbard T, Dekker J, Frankish A, Salehi-Ashtiani K, Reymond A, Antonarakis SE, Guigó R, Gingeras TR. Evidence for transcript networks composed of chimeric RNAs in human cells. PLoS One. 2012; 7(1):e28213. PMID: 22238572.
    Citations: 33     Fields:    Translation:HumansCells
  59. Maxwell CA, Benítez J, Gómez-Baldó L, Osorio A, Bonifaci N, Fernández-Ramires R, Costes SV, Guinó E, Chen H, Evans GJ, Mohan P, Català I, Petit A, Aguilar H, Villanueva A, Aytes A, Serra-Musach J, Rennert G, Lejbkowicz F, Peterlongo P, Manoukian S, Peissel B, Ripamonti CB, Bonanni B, Viel A, Allavena A, Bernard L, Radice P, Friedman E, Kaufman B, Laitman Y, Dubrovsky M, Milgrom R, Jakubowska A, Cybulski C, Gorski B, Jaworska K, Durda K, Sukiennicki G, Lubinski J, Shugart YY, Domchek SM, Letrero R, Weber BL, Hogervorst FB, Rookus MA, Collee JM, Devilee P, Ligtenberg MJ, Luijt RB, Aalfs CM, Waisfisz Q, Wijnen J, Roozendaal CE, Easton DF, Peock S, Cook M, Oliver C, Frost D, Harrington P, Evans DG, Lalloo F, Eeles R, Izatt L, Chu C, Eccles D, Douglas F, Brewer C, Nevanlinna H, Heikkinen T, Couch FJ, Lindor NM, Wang X, Godwin AK, Caligo MA, Lombardi G, Loman N, Karlsson P, Ehrencrona H, Wachenfeldt Av, Barkardottir RB, Hamann U, Rashid MU, Lasa A, Caldés T, Andrés R, Schmitt M, Assmann V, Stevens K, Offit K, Curado J, Tilgner H, Guigó R, Aiza G, Brunet J, Castellsagué J, Martrat G, Urruticoechea A, Blanco I, Tihomirova L, Goldgar DE, Buys S, John EM, Miron A, Southey M, Daly MB, Schmutzler RK, Wappenschmidt B, Meindl A, Arnold N, Deissler H, Varon-Mateeva R, Sutter C, Niederacher D, Imyamitov E, Sinilnikova OM, Stoppa-Lyonne D, Mazoyer S, Verny-Pierre C, Castera L, de Pauw A, Bignon YJ, Uhrhammer N, Peyrat JP, Vennin P, Fert Ferrer S, Collonge-Rame MA, Mortemousque I, Spurdle AB, Beesley J, Chen X, Healey S, Barcellos-Hoff MH, Vidal M, Gruber SB, Lázaro C, Capellá G, McGuffog L, Nathanson KL, Antoniou AC, Chenevix-Trench G, Fleisch MC, Moreno V, Pujana MA. Interplay between BRCA1 and RHAMM regulates epithelial apicobasal polarization and may influence risk of breast cancer. PLoS Biol. 2011 Nov; 9(11):e1001199. PMID: 22110403; PMCID: PMC3217025.
    Citations: 32     Fields:    Translation:HumansCells
  60. Anders L, Ke N, Hydbring P, Choi YJ, Widlund HR, Chick JM, Zhai H, Vidal M, Gygi SP, Braun P, Sicinski P. A systematic screen for CDK4/6 substrates links FOXM1 phosphorylation to senescence suppression in cancer cells. Cancer Cell. 2011 Nov 15; 20(5):620-34. PMID: 22094256; PMCID: PMC3237683.
    Citations: 122     Fields:    Translation:HumansCells
  61. Schild-Prüfert K, Saito TT, Smolikov S, Gu Y, Hincapie M, Hill DE, Vidal M, McDonald K, Colaiácovo MP. Organization of the synaptonemal complex during meiosis in Caenorhabditis elegans. Genetics. 2011 Oct; 189(2):411-21. PMID: 21840865; PMCID: PMC3189812.
    Citations: 25     Fields:    Translation:AnimalsCells
  62. Evidence for network evolution in an Arabidopsis interactome map. Science. 2011 Jul 29; 333(6042):601-7. PMID: 21798944; PMCID: PMC3170756.
    Citations: 255     Fields:    Translation:AnimalsCells
  63. Yang X, Boehm JS, Yang X, Salehi-Ashtiani K, Hao T, Shen Y, Lubonja R, Thomas SR, Alkan O, Bhimdi T, Green TM, Johannessen CM, Silver SJ, Nguyen C, Murray RR, Hieronymus H, Balcha D, Fan C, Lin C, Ghamsari L, Vidal M, Hahn WC, Hill DE, Root DE. A public genome-scale lentiviral expression library of human ORFs. Nat Methods. 2011 Jun 26; 8(8):659-61. PMID: 21706014; PMCID: PMC3234135.
    Citations: 138     Fields:    Translation:HumansCells
  64. Yu H, Tardivo L, Tam S, Weiner E, Gebreab F, Fan C, Svrzikapa N, Hirozane-Kishikawa T, Rietman E, Yang X, Sahalie J, Salehi-Ashtiani K, Hao T, Cusick ME, Hill DE, Roth FP, Braun P, Vidal M. Next-generation sequencing to generate interactome datasets. Nat Methods. 2011 Jun; 8(6):478-80. PMID: 21516116; PMCID: PMC3188388.
    Citations: 81     Fields:    Translation:Humans
  65. Vidal M, Cusick ME, Barabási AL. Interactome networks and human disease. Cell. 2011 Mar 18; 144(6):986-98. PMID: 21414488; PMCID: PMC3102045.
    Citations: 406     Fields:    Translation:Humans
  66. Suzuki Y, St Onge RP, Mani R, King OD, Heilbut A, Labunskyy VM, Chen W, Pham L, Zhang LV, Tong AH, Nislow C, Giaever G, Gladyshev VN, Vidal M, Schow P, Lehár J, Roth FP. Knocking out multigene redundancies via cycles of sexual assortment and fluorescence selection. Nat Methods. 2011 Feb; 8(2):159-64. PMID: 21217751; PMCID: PMC3076670.
    Citations: 22     Fields:    Translation:Animals
  67. Charloteaux B, Zhong Q, Dreze M, Cusick ME, Hill DE, Vidal M. Protein-protein interactions and networks: forward and reverse edgetics. Methods Mol Biol. 2011; 759:197-213. PMID: 21863489.
    Citations: 10     Fields:    
  68. Brehme M, Vidal M. A global protein-lipid interactome map. Mol Syst Biol. 2010 Nov 30; 6:443. PMID: 21119635; PMCID: PMC3010114.
    Citations: 3     Fields:    Translation:AnimalsCells
  69. Johannessen CM, Boehm JS, Kim SY, Thomas SR, Wardwell L, Johnson LA, Emery CM, Stransky N, Cogdill AP, Barretina J, Caponigro G, Hieronymus H, Murray RR, Salehi-Ashtiani K, Hill DE, Vidal M, Zhao JJ, Yang X, Alkan O, Kim S, Harris JL, Wilson CJ, Myer VE, Finan PM, Root DE, Roberts TM, Golub T, Flaherty KT, Dummer R, Weber BL, Sellers WR, Schlegel R, Wargo JA, Hahn WC, Garraway LA. COT drives resistance to RAF inhibition through MAP kinase pathway reactivation. Nature. 2010 Dec 16; 468(7326):968-72. PMID: 21107320; PMCID: PMC3058384.
    Citations: 497     Fields:    Translation:HumansCells
  70. Giordano-Santini R, Milstein S, Svrzikapa N, Tu D, Johnsen R, Baillie D, Vidal M, Dupuy D. An antibiotic selection marker for nematode transgenesis. Nat Methods. 2010 Sep; 7(9):721-3. PMID: 20729841.
    Citations: 26     Fields:    Translation:Animals
  71. Yan H, Venkatesan K, Beaver JE, Klitgord N, Yildirim MA, Hao T, Hill DE, Cusick ME, Perrimon N, Roth FP, Vidal M. A genome-wide gene function prediction resource for Drosophila melanogaster. PLoS One. 2010 Aug 12; 5(8):e12139. PMID: 20711346; PMCID: PMC2920829.
    Citations: 11     Fields:    Translation:Animals
  72. Wang J, Robida-Stubbs S, Tullet JM, Rual JF, Vidal M, Blackwell TK. RNAi screening implicates a SKN-1-dependent transcriptional response in stress resistance and longevity deriving from translation inhibition. PLoS Genet. 2010 Aug 05; 6(8). PMID: 20700440; PMCID: PMC2916858.
    Citations: 69     Fields:    Translation:AnimalsCells
  73. Mangone M, Manoharan AP, Thierry-Mieg D, Thierry-Mieg J, Han T, Mackowiak SD, Mis E, Zegar C, Gutwein MR, Khivansara V, Attie O, Chen K, Salehi-Ashtiani K, Vidal M, Harkins TT, Bouffard P, Suzuki Y, Sugano S, Kohara Y, Rajewsky N, Piano F, Gunsalus KC, Kim JK. The landscape of C. elegans 3'UTRs. Science. 2010 Jul 23; 329(5990):432-5. PMID: 20522740; PMCID: PMC3142571.
    Citations: 132     Fields:    Translation:AnimalsCells
  74. Pilot-Storck F, Chopin E, Rual JF, Baudot A, Dobrokhotov P, Robinson-Rechavi M, Brun C, Cusick ME, Hill DE, Schaeffer L, Vidal M, Goillot E. Interactome mapping of the phosphatidylinositol 3-kinase-mammalian target of rapamycin pathway identifies deformed epidermal autoregulatory factor-1 as a new glycogen synthase kinase-3 interactor. Mol Cell Proteomics. 2010 Jul; 9(7):1578-93. PMID: 20368287; PMCID: PMC2938100.
    Citations: 20     Fields:    Translation:HumansAnimalsCells
  75. Gómez-Baldó L, Schmidt S, Maxwell CA, Bonifaci N, Gabaldón T, Vidalain PO, Senapedis W, Kletke A, Rosing M, Barnekow A, Rottapel R, Capellá G, Vidal M, Astrinidis A, Piekorz RP, Pujana MA. TACC3-TSC2 maintains nuclear envelope structure and controls cell division. Cell Cycle. 2010 Mar 15; 9(6):1143-55. PMID: 20237422.
    Citations: 9     Fields:    Translation:HumansAnimalsCells
  76. Dreze M, Monachello D, Lurin C, Cusick ME, Hill DE, Vidal M, Braun P. High-quality binary interactome mapping. Methods Enzymol. 2010; 470:281-315. PMID: 20946815.
    Citations: 53     Fields:    Translation:AnimalsCells
  77. Yadav VK, Balaji S, Suresh PS, Liu XS, Lu X, Li Z, Guo XE, Mann JJ, Balapure AK, Gershon MD, Medhamurthy R, Vidal M, Karsenty G, Ducy P. Pharmacological inhibition of gut-derived serotonin synthesis is a potential bone anabolic treatment for osteoporosis. Nat Med. 2010 Mar; 16(3):308-12. PMID: 20139991; PMCID: PMC2836724.
    Citations: 86     Fields:    Translation:HumansAnimals
  78. Vidal M. A unifying view of 21st century systems biology. FEBS Lett. 2009 Dec 17; 583(24):3891-4. PMID: 19913537.
    Citations: 29     Fields:    
  79. 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, Brasseur R, Hill DE, Cusick ME, Vidal M. Edgetic perturbation models of human inherited disorders. Mol Syst Biol. 2009; 5:321. PMID: 19888216; PMCID: PMC2795474.
    Citations: 130     Fields:    Translation:Humans
  80. Dreze M, Charloteaux B, Milstein S, Vidalain PO, Yildirim MA, Zhong Q, Svrzikapa N, Romero V, Laloux G, Brasseur R, Vandenhaute J, Boxem M, Cusick ME, Hill DE, Vidal M. 'Edgetic' perturbation of a C. elegans BCL2 ortholog. Nat Methods. 2009 Nov; 6(11):843-9. PMID: 19855391; PMCID: PMC2865203.
    Citations: 31     Fields:    Translation:AnimalsCells
  81. Joubert PE, Meiffren G, Grégoire IP, Pontini G, Richetta C, Flacher M, Azocar O, Vidalain PO, Vidal M, Lotteau V, Codogno P, Rabourdin-Combe C, Faure M. Autophagy induction by the pathogen receptor CD46. Cell Host Microbe. 2009 Oct 22; 6(4):354-66. PMID: 19837375.
    Citations: 79     Fields:    Translation:HumansCells
  82. Tonikian R, Xin X, Toret CP, Gfeller D, Landgraf C, Panni S, Paoluzi S, Castagnoli L, Currell B, Seshagiri S, Yu H, Winsor B, Vidal M, Gerstein MB, Bader GD, Volkmer R, Cesareni G, Drubin DG, Kim PM, Sidhu SS, Boone C. Bayesian modeling of the yeast SH3 domain interactome predicts spatiotemporal dynamics of endocytosis proteins. PLoS Biol. 2009 Oct; 7(10):e1000218. PMID: 19841731; PMCID: PMC2756588.
    Citations: 76     Fields:    Translation:AnimalsCells
  83. Salehi-Ashtiani K, Lin C, Hao T, Shen Y, Szeto D, Yang X, Ghamsari L, Lee H, Fan C, Murray RR, Milstein S, Svrzikapa N, Cusick ME, Roth FP, Hill DE, Vidal M. Large-scale RACE approach for proactive experimental definition of C. elegans ORFeome. Genome Res. 2009 Dec; 19(12):2334-42. PMID: 19801531; PMCID: PMC2792173.
    Citations: 7     Fields:    Translation:AnimalsCells
  84. De Nicolo A, Parisini E, Zhong Q, Dalla Palma M, Stoeckert KA, Domchek SM, Nathanson KL, Caligo MA, Vidal M, Cusick ME, Garber JE. Multimodal assessment of protein functional deficiency supports pathogenicity of BRCA1 p.V1688del. Cancer Res. 2009 Sep 01; 69(17):7030-7. PMID: 19706752; PMCID: PMC2748232.
    Citations: 5     Fields:    Translation:HumansCells
  85. Manichaikul A, Ghamsari L, Hom EF, Lin C, Murray RR, Chang RL, Balaji S, Hao T, Shen Y, Chavali AK, Thiele I, Yang X, Fan C, Mello E, Hill DE, Vidal M, Salehi-Ashtiani K, Papin JA. Metabolic network analysis integrated with transcript verification for sequenced genomes. Nat Methods. 2009 Aug; 6(8):589-92. PMID: 19597503; PMCID: PMC3139173.
    Citations: 32     Fields:    Translation:AnimalsCells
  86. Markson G, Kiel C, Hyde R, Brown S, Charalabous P, Bremm A, Semple J, Woodsmith J, Duley S, Salehi-Ashtiani K, Vidal M, Komander D, Serrano L, Lehner P, Sanderson CM. Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network. Genome Res. 2009 Oct; 19(10):1905-11. PMID: 19549727.
    Citations: 60     Fields:    Translation:HumansCells
  87. Carvunis AR, Gomez E, Thierry-Mieg N, Trilling L, Vidal M. [Systems biology: from yesterday's concepts to tomorrow's discoveries]. Med Sci (Paris). 2009 Jun-Jul; 25(6-7):578-84. PMID: 19602354.
    Citations: 1     Fields:    
  88. Xin X, Rual JF, Hirozane-Kishikawa T, Hill DE, Vidal M, Boone C, Thierry-Mieg N. Shifted Transversal Design smart-pooling for high coverage interactome mapping. Genome Res. 2009 Jul; 19(7):1262-9. PMID: 19447967; PMCID: PMC2704426.
    Citations: 16     Fields:    Translation:Animals
  89. van der Voet M, Berends CW, Perreault A, Nguyen-Ngoc T, Gönczy P, Vidal M, Boxem M, van den Heuvel S. NuMA-related LIN-5, ASPM-1, calmodulin and dynein promote meiotic spindle rotation independently of cortical LIN-5/GPR/Galpha. Nat Cell Biol. 2009 Mar; 11(3):269-77. PMID: 19219036.
    Citations: 59     Fields:    Translation:AnimalsCells
  90. Lievens S, Vanderroost N, Van der Heyden J, Gesellchen V, Vidal M, Tavernier J. Array MAPPIT: high-throughput interactome analysis in mammalian cells. J Proteome Res. 2009 Feb; 8(2):877-86. PMID: 19159283.
    Citations: 19     Fields:    Translation:HumansAnimalsCells
  91. Simonis N, Rual JF, Carvunis AR, Tasan M, Lemmens I, Hirozane-Kishikawa T, Hao T, Sahalie JM, Venkatesan K, Gebreab F, Cevik S, Klitgord N, Fan C, Braun P, Li N, Ayivi-Guedehoussou N, Dann E, Bertin N, Szeto D, Dricot A, Yildirim MA, Lin C, de Smet AS, Kao HL, Simon C, Smolyar A, Ahn JS, Tewari M, Boxem M, Milstein S, Yu H, Dreze M, Vandenhaute J, Gunsalus KC, Cusick ME, Hill DE, Tavernier J, Roth FP, Vidal M. Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network. Nat Methods. 2009 Jan; 6(1):47-54. PMID: 19123269; PMCID: PMC3057923.
    Citations: 89     Fields:    Translation:HumansAnimalsCells
  92. Cusick ME, Yu H, Smolyar A, Venkatesan K, Carvunis AR, Simonis N, Rual JF, Borick H, Braun P, Dreze M, Vandenhaute J, Galli M, Yazaki J, Hill DE, Ecker JR, Roth FP, Vidal M. Literature-curated protein interaction datasets. Nat Methods. 2009 Jan; 6(1):39-46. PMID: 19116613; PMCID: PMC2683745.
    Citations: 109     Fields:    Translation:HumansAnimalsCells
  93. Venkatesan K, Rual JF, Vazquez A, Stelzl U, Lemmens I, Hirozane-Kishikawa T, Hao T, Zenkner M, Xin X, Goh KI, Yildirim MA, Simonis N, Heinzmann K, Gebreab F, Sahalie JM, Cevik S, Simon C, de Smet AS, Dann E, Smolyar A, Vinayagam A, Yu H, Szeto D, Borick H, Dricot A, Klitgord N, Murray RR, Lin C, Lalowski M, Timm J, Rau K, Boone C, Braun P, Cusick ME, Roth FP, Hill DE, Tavernier J, Wanker EE, Barabási AL, Vidal M. An empirical framework for binary interactome mapping. Nat Methods. 2009 Jan; 6(1):83-90. PMID: 19060904; PMCID: PMC2872561.
    Citations: 257     Fields:    Translation:HumansCells
  94. Braun P, Tasan M, Dreze M, Barrios-Rodiles M, Lemmens I, Yu H, Sahalie JM, Murray RR, Roncari L, de Smet AS, Venkatesan K, Rual JF, Vandenhaute J, Cusick ME, Pawson T, Hill DE, Tavernier J, Wrana JL, Roth FP, Vidal M. An experimentally derived confidence score for binary protein-protein interactions. Nat Methods. 2009 Jan; 6(1):91-7. PMID: 19060903; PMCID: PMC2976677.
    Citations: 158     Fields:    Translation:HumansAnimalsCells
  95. Chatr-aryamontri A, Ceol A, Peluso D, Nardozza A, Panni S, Sacco F, Tinti M, Smolyar A, Castagnoli L, Vidal M, Cusick ME, Cesareni G. VirusMINT: a viral protein interaction database. Nucleic Acids Res. 2009 Jan; 37(Database issue):D669-73. PMID: 18974184; PMCID: PMC2686573.
    Citations: 65     Fields:    
  96. 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, de Smet AS, Motyl A, Hudson ME, Park J, Xin X, Cusick ME, Moore T, Boone C, Snyder M, Roth FP, Barabási AL, Tavernier J, Hill DE, Vidal M. High-quality binary protein interaction map of the yeast interactome network. Science. 2008 Oct 03; 322(5898):104-10. PMID: 18719252; PMCID: PMC2746753.
    Citations: 467     Fields:    Translation:AnimalsCells
  97. Boxem M, Maliga Z, Klitgord N, Li N, Lemmens I, Mana M, de Lichtervelde L, Mul JD, van de Peut D, Devos M, Simonis N, Yildirim MA, Cokol M, Kao HL, de Smet AS, Wang H, Schlaitz AL, Hao T, Milstein S, Fan C, Tipsword M, Drew K, Galli M, Rhrissorrakrai K, Drechsel D, Koller D, Roth FP, Iakoucheva LM, Dunker AK, Bonneau R, Gunsalus KC, Hill DE, Piano F, Tavernier J, van den Heuvel S, Hyman AA, Vidal M. A protein domain-based interactome network for C. elegans early embryogenesis. Cell. 2008 Aug 08; 134(3):534-45. PMID: 18692475; PMCID: PMC2596478.
    Citations: 80     Fields:    Translation:AnimalsCells
  98. Li S, Liu C, Li N, Hao T, Han T, Hill DE, Vidal M, Lin JD. Genome-wide coactivation analysis of PGC-1alpha identifies BAF60a as a regulator of hepatic lipid metabolism. Cell Metab. 2008 Aug; 8(2):105-17. PMID: 18680712; PMCID: PMC2578827.
    Citations: 62     Fields:    Translation:AnimalsCells
  99. Braun P, Rietman E, Vidal M. Networking metabolites and diseases. Proc Natl Acad Sci U S A. 2008 Jul 22; 105(29):9849-50. PMID: 18632571; PMCID: PMC2481360.
    Citations: 11     Fields:    Translation:Humans
  100. Pagliarini DJ, Calvo SE, Chang B, Sheth SA, Vafai SB, Ong SE, Walford GA, Sugiana C, Boneh A, Chen WK, Hill DE, Vidal M, Evans JG, Thorburn DR, Carr SA, Mootha VK. A mitochondrial protein compendium elucidates complex I disease biology. Cell. 2008 Jul 11; 134(1):112-23. PMID: 18614015; PMCID: PMC2778844.
    Citations: 587     Fields:    Translation:HumansAnimalsCells
  101. Bender J, Benfey P, Bergmann D, Borevitz J, Coruzzi G, Dangl J, Dean C, Ecker J, Estelle M, Glazebrook J, Grant S, Guerinot ML, Gutierrez R, Long J, Nordborg M, Poethig S, Raikhel N, Schmitt J, Schnittger A, Vidal M. 2020 vision for biology: the role of plants in addressing grand challenges in biology. Mol Plant. 2008 Jul; 1(4):561-3. PMID: 19825561.
    Citations: 1     Fields:    Translation:AnimalsCells
  102. Salehi-Ashtiani K, Yang X, Derti A, Tian W, Hao T, Lin C, Makowski K, Shen L, Murray RR, Szeto D, Tusneem N, Smith DR, Cusick ME, Hill DE, Roth FP, Vidal M. Isoform discovery by targeted cloning, 'deep-well' pooling and parallel sequencing. Nat Methods. 2008 Jul; 5(7):597-600. PMID: 18552854; PMCID: PMC2743938.
    Citations: 17     Fields:    Translation:HumansAnimalsCells
  103. Djebali S, Kapranov P, Foissac S, Lagarde J, Reymond A, Ucla C, Wyss C, Drenkow J, Dumais E, Murray RR, Lin C, Szeto D, Denoeud F, Calvo M, Frankish A, Harrow J, Makrythanasis P, Vidal M, Salehi-Ashtiani K, Antonarakis SE, Gingeras TR, Guigó R. Efficient targeted transcript discovery via array-based normalization of RACE libraries. Nat Methods. 2008 Jul; 5(7):629-35. PMID: 18500348.
    Citations: 24     Fields:    Translation:HumansCells
  104. Li QR, Carvunis AR, Yu H, Han JD, Zhong Q, Simonis N, Tam S, Hao T, Klitgord NJ, Dupuy D, Mou D, Wapinski I, Regev A, Hill DE, Cusick ME, Vidal M. Revisiting the Saccharomyces cerevisiae predicted ORFeome. Genome Res. 2008 Aug; 18(8):1294-303. PMID: 18502943; PMCID: PMC2493439.
    Citations: 11     Fields:    Translation:AnimalsCells
  105. Yildirim MA, Vidal M. Systems engineering to systems biology. Mol Syst Biol. 2008; 4:185. PMID: 18414486; PMCID: PMC2387234.
    Citations: 1     Fields:    Translation:AnimalsCells
  106. Kerrien S, Orchard S, Montecchi-Palazzi L, Aranda B, Quinn AF, Vinod N, Bader GD, Xenarios I, Wojcik J, Sherman D, Tyers M, Salama JJ, Moore S, Ceol A, Chatr-Aryamontri A, Oesterheld M, Stümpflen V, Salwinski L, Nerothin J, Cerami E, Cusick ME, Vidal M, Gilson M, Armstrong J, Woollard P, Hogue C, Eisenberg D, Cesareni G, Apweiler R, Hermjakob H. Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions. BMC Biol. 2007 Oct 09; 5:44. PMID: 17925023; PMCID: PMC2189715.
    Citations: 115     Fields:    
  107. Pujana MA, Han JD, Starita LM, Stevens KN, Tewari M, Ahn JS, Rennert G, Moreno V, Kirchhoff T, Gold B, Assmann V, Elshamy WM, Rual JF, Levine D, Rozek LS, Gelman RS, Gunsalus KC, Greenberg RA, Sobhian B, Bertin N, Venkatesan K, Ayivi-Guedehoussou N, Solé X, Hernández P, Lázaro C, Nathanson KL, Weber BL, Cusick ME, Hill DE, Offit K, Livingston DM, Gruber SB, Parvin JD, Vidal M. Network modeling links breast cancer susceptibility and centrosome dysfunction. Nat Genet. 2007 Nov; 39(11):1338-49. PMID: 17922014.
    Citations: 236     Fields:    Translation:HumansCells
  108. Yildirim MA, Goh KI, Cusick ME, Barabási AL, Vidal M. Drug-target network. Nat Biotechnol. 2007 Oct; 25(10):1119-26. PMID: 17921997.
    Citations: 424     Fields:    Translation:HumansCells
  109. Orchard S, Salwinski L, Kerrien S, Montecchi-Palazzi L, Oesterheld M, Stümpflen V, Ceol A, Chatr-aryamontri A, Armstrong J, Woollard P, Salama JJ, Moore S, Wojcik J, Bader GD, Vidal M, Cusick ME, Gerstein M, Gavin AC, Superti-Furga G, Greenblatt J, Bader J, Uetz P, Tyers M, Legrain P, Fields S, Mulder N, Gilson M, Niepmann M, Burgoon L, De Las Rivas J, Prieto C, Perreau VM, Hogue C, Mewes HW, Apweiler R, Xenarios I, Eisenberg D, Cesareni G, Hermjakob H. The minimum information required for reporting a molecular interaction experiment (MIMIx). Nat Biotechnol. 2007 Aug; 25(8):894-8. PMID: 17687370.
    Citations: 94     Fields:    Translation:Humans
  110. Simarro M, Mauger D, Rhee K, Pujana MA, Kedersha NL, Yamasaki S, Cusick ME, Vidal M, Garcia-Blanco MA, Anderson P. Fas-activated serine/threonine phosphoprotein (FAST) is a regulator of alternative splicing. Proc Natl Acad Sci U S A. 2007 Jul 03; 104(27):11370-5. PMID: 17592127; PMCID: PMC2040905.
    Citations: 16     Fields:    Translation:HumansAnimalsCells
  111. Boehm JS, Zhao JJ, Yao J, Kim SY, Firestein R, Dunn IF, Sjostrom SK, Garraway LA, Weremowicz S, Richardson AL, Greulich H, Stewart CJ, Mulvey LA, Shen RR, Ambrogio L, Hirozane-Kishikawa T, Hill DE, Vidal M, Meyerson M, Grenier JK, Hinkle G, Root DE, Roberts TM, Lander ES, Polyak K, Hahn WC. Integrative genomic approaches identify IKBKE as a breast cancer oncogene. Cell. 2007 Jun 15; 129(6):1065-79. PMID: 17574021.
    Citations: 240     Fields:    Translation:HumansCells
  112. Bertin N, Simonis N, Dupuy D, Cusick ME, Han JD, Fraser HB, Roth FP, Vidal M. Confirmation of organized modularity in the yeast interactome. PLoS Biol. 2007 Jun; 5(6):e153. PMID: 17564493; PMCID: PMC1892830.
    Citations: 32     Fields:    Translation:Animals
  113. Goh KI, Cusick ME, Valle D, Childs B, Vidal M, Barabási AL. The human disease network. Proc Natl Acad Sci U S A. 2007 May 22; 104(21):8685-90. PMID: 17502601; PMCID: PMC1885563.
    Citations: 848     Fields:    Translation:Humans
  114. Dupuy D, Bertin N, Hidalgo CA, Venkatesan K, Tu D, Lee D, Rosenberg J, Svrzikapa N, Blanc A, Carnec A, Carvunis AR, Pulak R, Shingles J, Reece-Hoyes J, Hunt-Newbury R, Viveiros R, Mohler WA, Tasan M, Roth FP, Le Peuch C, Hope IA, Johnsen R, Moerman DG, Barabási AL, Baillie D, Vidal M. Genome-scale analysis of in vivo spatiotemporal promoter activity in Caenorhabditis elegans. Nat Biotechnol. 2007 Jun; 25(6):663-8. PMID: 17486083.
    Citations: 123     Fields:    Translation:AnimalsCells
  115. Calderwood MA, Venkatesan K, Xing L, Chase MR, Vazquez A, Holthaus AM, Ewence AE, Li N, Hirozane-Kishikawa T, Hill DE, Vidal M, Kieff E, Johannsen E. Epstein-Barr virus and virus human protein interaction maps. Proc Natl Acad Sci U S A. 2007 May 01; 104(18):7606-11. PMID: 17446270; PMCID: PMC1863443.
    Citations: 143     Fields:    Translation:HumansCells
  116. Ceron J, Rual JF, Chandra A, Dupuy D, Vidal M, van den Heuvel S. Large-scale RNAi screens identify novel genes that interact with the C. elegans retinoblastoma pathway as well as splicing-related components with synMuv B activity. BMC Dev Biol. 2007 Apr 06; 7:30. PMID: 17417969; PMCID: PMC1863419.
    Citations: 51     Fields:    Translation:AnimalsCells
  117. Reece-Hoyes JS, Shingles J, Dupuy D, Grove CA, Walhout AJ, Vidal M, Hope IA. Insight into transcription factor gene duplication from Caenorhabditis elegans Promoterome-driven expression patterns. BMC Genomics. 2007 Jan 23; 8:27. PMID: 17244357; PMCID: PMC1785375.
    Citations: 59     Fields:    Translation:AnimalsCells
  118. Lamesch P, Li N, Milstein S, Fan C, Hao T, Szabo G, Hu Z, Venkatesan K, Bethel G, Martin P, Rogers J, Lawlor S, McLaren S, Dricot A, Borick H, Cusick ME, Vandenhaute J, Dunham I, Hill DE, Vidal M. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. Genomics. 2007 Mar; 89(3):307-15. PMID: 17207965; PMCID: PMC4647941.
    Citations: 123     Fields:    Translation:HumansAnimalsCells
  119. Wang H, Segal E, Ben-Hur A, Li QR, Vidal M, Koller D. InSite: a computational method for identifying protein-protein interaction binding sites on a proteome-wide scale. Genome Biol. 2007; 8(9):R192. PMID: 17868464; PMCID: PMC2375030.
    Citations: 21     Fields:    Translation:HumansAnimalsCells
  120. Yu A, Rual JF, Tamai K, Harada Y, Vidal M, He X, Kirchhausen T. Association of Dishevelled with the clathrin AP-2 adaptor is required for Frizzled endocytosis and planar cell polarity signaling. Dev Cell. 2007 Jan; 12(1):129-41. PMID: 17199046; PMCID: PMC2831292.
    Citations: 68     Fields:    Translation:HumansAnimalsCells
  121. Braun P, Cusick ME, Vidal M. QUICKstep and GS-TAP: new moves for protein-interaction analysis. Nat Methods. 2006 Dec; 3(12):975-6. PMID: 17117154.
    Citations: 1     Fields:    
  122. Li J, Tewari M, Vidal M, Lee SS. The 14-3-3 protein FTT-2 regulates DAF-16 in Caenorhabditis elegans. Dev Biol. 2007 Jan 01; 301(1):82-91. PMID: 17098225; PMCID: PMC1963419.
    Citations: 41     Fields:    Translation:AnimalsCells
  123. Piano F, Gunsalus KC, Hill DE, Vidal M. C. elegans network biology: a beginning. WormBook. 2006 Aug 21; 1-20. PMID: 18050437; PMCID: PMC4781290.
    Citations: 8     Fields:    Translation:Animals
  124. Kritikou EA, Milstein S, Vidalain PO, Lettre G, Bogan E, Doukoumetzidis K, Gray P, Chappell TG, Vidal M, Hengartner MO. C. elegans GLA-3 is a novel component of the MAP kinase MPK-1 signaling pathway required for germ cell survival. Genes Dev. 2006 Aug 15; 20(16):2279-92. PMID: 16912277; PMCID: PMC1553210.
    Citations: 26     Fields:    Translation:AnimalsCells
  125. Haynes C, Oldfield CJ, Ji F, Klitgord N, Cusick ME, Radivojac P, Uversky VN, Vidal M, Iakoucheva LM. Intrinsic disorder is a common feature of hub proteins from four eukaryotic interactomes. PLoS Comput Biol. 2006 Aug 04; 2(8):e100. PMID: 16884331; PMCID: PMC1526461.
    Citations: 173     Fields:    Translation:HumansAnimalsCells
  126. Lim J, Hao T, Shaw C, Patel AJ, Szabó G, Rual JF, Fisk CJ, Li N, Smolyar A, Hill DE, Barabási AL, Vidal M, Zoghbi HY. A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. Cell. 2006 May 19; 125(4):801-14. PMID: 16713569.
    Citations: 295     Fields:    Translation:HumansAnimalsCells
  127. Temple G, Lamesch P, Milstein S, Hill DE, Wagner L, Moore T, Vidal M. From genome to proteome: developing expression clone resources for the human genome. Hum Mol Genet. 2006 Apr 15; 15 Spec No 1:R31-43. PMID: 16651367.
    Citations: 13     Fields:    Translation:Humans
  128. Vidal M. [Network "interactome"]. Bull Mem Acad R Med Belg. 2006; 161(3-4):199-210; discussion 210-2. PMID: 17172226.
    Citations:    Fields:    Translation:Humans
  129. Rual JF, Venkatesan K, Hao T, Hirozane-Kishikawa T, Dricot A, Li N, Berriz GF, Gibbons FD, Dreze M, Ayivi-Guedehoussou N, Klitgord N, Simon C, Boxem M, Milstein S, Rosenberg J, Goldberg DS, Zhang LV, Wong SL, Franklin G, Li S, Albala JS, Lim J, Fraughton C, Llamosas E, Cevik S, Bex C, Lamesch P, Sikorski RS, Vandenhaute J, Zoghbi HY, Smolyar A, Bosak S, Sequerra R, Doucette-Stamm L, Cusick ME, Hill DE, Roth FP, Vidal M. Towards a proteome-scale map of the human protein-protein interaction network. Nature. 2005 Oct 20; 437(7062):1173-8. PMID: 16189514.
    Citations: 956     Fields:    Translation:HumansAnimalsCells
  130. Cusick ME, Klitgord N, Vidal M, Hill DE. Interactome: gateway into systems biology. Hum Mol Genet. 2005 Oct 15; 14 Spec No. 2:R171-81. PMID: 16162640.
    Citations: 109     Fields:    Translation:HumansAnimals
  131. Gillette WK, Esposito D, Frank PH, Zhou M, Yu LR, Jozwik C, Zhang X, McGowan B, Jacobowitz DM, Pollard HB, Hao T, Hill DE, Vidal M, Conrads TP, Veenstra TD, Hartley JL. Pooled ORF expression technology (POET): using proteomics to screen pools of open reading frames for protein expression. Mol Cell Proteomics. 2005 Nov; 4(11):1647-52. PMID: 16113400.
    Citations: 2     Fields:    Translation:AnimalsCells
  132. Gunsalus KC, Ge H, Schetter AJ, Goldberg DS, Han JD, Hao T, Berriz GF, Bertin N, Huang J, Chuang LS, Li N, Mani R, Hyman AA, Sönnichsen B, Echeverri CJ, Roth FP, Vidal M, Piano F. Predictive models of molecular machines involved in Caenorhabditis elegans early embryogenesis. Nature. 2005 Aug 11; 436(7052):861-5. PMID: 16094371.
    Citations: 103     Fields:    Translation:AnimalsCells
  133. Sieburth D, Ch'ng Q, Dybbs M, Tavazoie M, Kennedy S, Wang D, Dupuy D, Rual JF, Hill DE, Vidal M, Ruvkun G, Kaplan JM. Systematic analysis of genes required for synapse structure and function. Nature. 2005 Jul 28; 436(7050):510-7. PMID: 16049479.
    Citations: 152     Fields:    Translation:AnimalsCells
  134. Davison EM, Harrison MM, Walhout AJ, Vidal M, Horvitz HR. lin-8, which antagonizes Caenorhabditis elegans Ras-mediated vulval induction, encodes a novel nuclear protein that interacts with the LIN-35 Rb protein. Genetics. 2005 Nov; 171(3):1017-31. PMID: 16020796; PMCID: PMC1456809.
    Citations: 12     Fields:    Translation:AnimalsCells
  135. Scholtens D, Vidal M, Gentleman R. Local modeling of global interactome networks. Bioinformatics. 2005 Sep 01; 21(17):3548-57. PMID: 15998662.
    Citations: 24     Fields:    Translation:Cells
  136. Han JD, Dupuy D, Bertin N, Cusick ME, Vidal M. Effect of sampling on topology predictions of protein-protein interaction networks. Nat Biotechnol. 2005 Jul; 23(7):839-44. PMID: 16003372.
    Citations: 86     Fields:    Translation:Animals
  137. Milstein S, Vidal M. Perturbing interactions. Nat Methods. 2005 Jun; 2(6):412-4. PMID: 15908918.
    Citations:    Fields:    Translation:HumansAnimalsCells
  138. Caruso ME, Jenna S, Beaulne S, Lee EH, Bergeron A, Chauve C, Roby P, Rual JF, Hill DE, Vidal M, Bossé R, Chevet E. Biochemical clustering of monomeric GTPases of the Ras superfamily. Mol Cell Proteomics. 2005 Jul; 4(7):936-44. PMID: 15814614.
    Citations: 4     Fields:    Translation:AnimalsCells
  139. Wei C, Lamesch P, Arumugam M, Rosenberg J, Hu P, Vidal M, Brent MR. Closing in on the C. elegans ORFeome by cloning TWINSCAN predictions. Genome Res. 2005 Apr; 15(4):577-82. PMID: 15805498; PMCID: PMC1074372.
    Citations: 21     Fields:    Translation:Animals
  140. Kim JK, Gabel HW, Kamath RS, Tewari M, Pasquinelli A, Rual JF, Kennedy S, Dybbs M, Bertin N, Kaplan JM, Vidal M, Ruvkun G. Functional genomic analysis of RNA interference in C. elegans. Science. 2005 May 20; 308(5725):1164-7. PMID: 15790806.
    Citations: 126     Fields:    Translation:AnimalsCells
  141. Fox RM, Von Stetina SE, Barlow SJ, Shaffer C, Olszewski KL, Moore JH, Dupuy D, Vidal M, Miller DM. A gene expression fingerprint of C. elegans embryonic motor neurons. BMC Genomics. 2005 Mar 21; 6:42. PMID: 15780142.
    Citations: 53     Fields:    Translation:AnimalsCells
  142. Vidal M. Interactome modeling. FEBS Lett. 2005 Mar 21; 579(8):1834-8. PMID: 15763560.
    Citations: 37     Fields:    Translation:HumansAnimals
  143. Fernandez AG, Gunsalus KC, Huang J, Chuang LS, Ying N, Liang HL, Tang C, Schetter AJ, Zegar C, Rual JF, Hill DE, Reinke V, Vidal M, Piano F. New genes with roles in the C. elegans embryo revealed using RNAi of ovary-enriched ORFeome clones. Genome Res. 2005 Feb; 15(2):250-9. PMID: 15687288; PMCID: PMC546526.
    Citations: 21     Fields:    Translation:AnimalsCells