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The Notch Interactome: Complexity in Signaling Circuitry

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Molecular Mechanisms of Notch Signaling

Part of the book series: Advances in Experimental Medicine and Biology ((AEMB,volume 1066))

Abstract

The Notch pathway controls a very broad spectrum of cell fates in metazoans during development, influencing proliferation, differentiation and cell death. Given its central role in normal development and homeostasis, misregulation of Notch signals can lead to various disorders including cancer. How the Notch pathway mediates such pleiotropic and differential effects is of fundamental importance. It is becoming increasingly clear through a number of large-scale genetic and proteomic studies that Notch interacts with a staggeringly large number of other genes and pathways in a context-dependent, complex, and highly regulated network, which determines the ultimate biological outcome. How best to interpret and analyze the continuously increasing wealth of data on Notch interactors remains a challenge. Here we review the current state of genetic and proteomic data related to the Notch interactome.

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Abbreviations

BioPlex:

biophysical interactions of ORFeome-based complexes

CADASIL:

cerebral autosomal dominant arteriopathy with subcortical infarcts and leukoencephalopathy

DPiM:

Drosophila protein interaction map

NICD:

Notch intracellular domain

PPI:

protein-protein interaction

T-ALL:

T-cell acute lymphoblastic leukemia

Y2H:

yeast two-hybrid

References

  • Andersson ER, Sandberg R, Lendahl U (2011) Notch signaling: simplicity in design, versatility in function. Development 138:3593–3612

    Article  CAS  PubMed  Google Scholar 

  • Arking DE, Pulit SL, Crotti L, van der Harst P, Munroe PB, Koopmann TT, Sotoodehnia N, Rossin EJ, Morley M, Wang X, Johnson AD, Lundby A, Gudbjartsson DF, Noseworthy PA, Eijgelsheim M, Bradford Y, Tarasov KV, Dorr M, Muller-Nurasyid M, Lahtinen AM, Nolte IM, Smith AV, Bis JC, Isaacs A, Newhouse SJ, Evans DS, Post WS, Waggott D, Lyytikainen LP, Hicks AA, Eisele L, Ellinghaus D, Hayward C, Navarro P, Ulivi S, Tanaka T, Tester DJ, Chatel S, Gustafsson S, Kumari M, Morris RW, Naluai AT, Padmanabhan S, Kluttig A, Strohmer B, Panayiotou AG, Torres M, Knoflach M, Hubacek JA, Slowikowski K, Raychaudhuri S, Kumar RD, Harris TB, Launer LJ, Shuldiner AR, Alonso A, Bader JS, Ehret G, Huang H, Kao WH, Strait JB, Macfarlane PW, Brown M, Caulfield MJ, Samani NJ, Kronenberg F, Willeit J, Consortium CA, Consortium C, Smith JG, Greiser KH, Meyer Zu Schwabedissen H, Werdan K, Carella M, Zelante L, Heckbert SR, Psaty BM, Rotter JI, Kolcic I, Polasek O, Wright AF, Griffin M, Daly MJ, Dcct/Edic, Arnar DO, Holm H, Thorsteinsdottir U, MC E, Denny JC, Roden DM, Zuvich RL, Emilsson V, Plump AS, Larson MG, O'Donnell CJ, Yin X, Bobbo M, D’ Adamo AP, Iorio A, Sinagra G, Carracedo A, Cummings SR, Nalls MA, Jula A, Kontula KK, Marjamaa A, Oikarinen L, Perola M, Porthan K, Erbel R, Hoffmann P, Jockel KH, Kalsch H, Nothen MM, Consortium H, den Hoed M, Loos RJ, Thelle DS, Gieger C, Meitinger T, Perz S, Peters A, Prucha H, Sinner MF, Waldenberger M, de Boer RA, Franke L, van der Vleuten PA, Beckmann BM, Martens E, Bardai A, Hofman N, Wilde AA, Behr ER, Dalageorgou C, Giudicessi JR, Medeiros-Domingo A, Barc J, Kyndt F, Probst V, Ghidoni A, Insolia R, Hamilton RM, Scherer SW, Brandimarto J, Margulies K, Moravec CE, del Greco MF, Fuchsberger C, O'Connell JR, Lee WK, Watt GC, Campbell H, Wild SH, El Mokhtari NE, Frey N, Asselbergs FW, Mateo Leach I, Navis G, van den Berg MP, van Veldhuisen DJ, Kellis M, Krijthe BP, Franco OH, Hofman A, Kors JA, Uitterlinden AG, Witteman JC, Kedenko L, Lamina C, Oostra BA, Abecasis GR, Lakatta EG, Mulas A, Orru M, Schlessinger D, Uda M, Markus MR, Volker U, Snieder H, Spector TD, Arnlov J, Lind L, Sundstrom J, Syvanen AC, Kivimaki M, Kahonen M, Mononen N, Raitakari OT, Viikari JS, Adamkova V, Kiechl S, Brion M, Nicolaides AN, Paulweber B, Haerting J, Dominiczak AF, Nyberg F, Whincup PH, Hingorani AD, Schott JJ, Bezzina CR, Ingelsson E, Ferrucci L, Gasparini P, Wilson JF, Rudan I, Franke A, Muhleisen TW, Pramstaller PP, Lehtimaki TJ, Paterson AD, Parsa A, Liu Y, van Duijn CM, Siscovick DS, Gudnason V, Jamshidi Y, Salomaa V, Felix SB, Sanna S, Ritchie MD, Stricker BH, Stefansson K, Boyer LA, Cappola TP, Olsen JV, Lage K, Schwartz PJ, Kaab S, Chakravarti A, Ackerman MJ, Pfeufer A, de Bakker PI, Newton-Cheh C (2014) Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization. Nat Genet 46(8):826–836. https://doi.org/10.1038/ng.3014

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Artavanis-Tsakonas S, Muskavitch MAT (2010) Chapter One: Notch: the past, the present, and the future. Curr Top Dev Biol 92:1–29

    Article  CAS  PubMed  Google Scholar 

  • Arya R, White K (2015) Cell death in development: signaling pathways and core mechanisms. Semin Cell Dev Biol 39:12–19

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Bastian M, Heymann S, Jacomy M (2009) Gephi: an open source software for exploring and manipulating networks

    Google Scholar 

  • Borggrefe T, Lauth M, Zwijsen A, Huylebroeck D, Oswald F, Giaimo BD (2016) The Notch intracellular domain integrates signals from Wnt, Hedgehog, TGFbeta/BMP and hypoxia pathways. Biochim Biophys Acta 1863(2):303–313. https://doi.org/10.1016/j.bbamcr.2015.11.020. S0167-4889(15)00404-8 [pii]

    Article  PubMed  CAS  Google Scholar 

  • Bray S, Bernard F (2010) Chapter Eight: Notch targets and their regulation. Curr Top Dev Biol 92:253–275

    Article  CAS  PubMed  Google Scholar 

  • Bray SJ (2016) Notch signalling in context. Nat Rev Mol Cell Biol 17:722–735

    Article  CAS  PubMed  Google Scholar 

  • Brumby AM, Richardson HE (2003) Scribble mutants cooperate with oncogenic Ras or Notch to cause neoplastic overgrowth in Drosophila. EMBO J 22:5769–5779

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Cherbas L, Willingham A, Zhang D, Yang L, Zou Y, Eads BD, Carlson JW, Landolin JM, Kapranov P, Dumais J, Samsonova A, Choi J-H, Roberts J, Davis CA, Tang H, Van Baren MJ, Ghosh S, Dobin A, Bell K, Lin W, Langton L, Duff MO, Tenney AE, Zaleski C, Brent MR, Hoskins RA, Kaufman TC, Andrews J, Graveley BR, Perrimon N, Celniker SE, Gingeras TR, Cherbas P (2011) The transcriptional diversity of 25 Drosophila cell lines. Genome Res 21:301–314

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Conner SD (2016) Regulation of notch signaling through intracellular transport. Int Rev Cell Mol Biol 323:107–127

    Article  PubMed  Google Scholar 

  • Da Ros VG, Gutierrez-Perez I, Ferres-Marco D, Dominguez M (2013) Dampening the signals transduced through hedgehog via microRNA miR-7 facilitates notch-induced tumourigenesis. PLoS Biol 11(5):e1001554. https://doi.org/10.1371/journal.pbio.1001554. PBIOLOGY-D-12-03081 [pii]

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • del Álamo D, Rouault H, Schweisguth F (2011) Mechanism and significance of cis-inhibition in Notch signalling. Curr Biol 21:R40–R47

    Article  CAS  PubMed  Google Scholar 

  • Fabregat A, Sidiropoulos K, Garapati P, Gillespie M, Hausmann K, Haw R, Jassal B, Jupe S, Korninger F, McKay S, Matthews L, May B, Milacic M, Rothfels K, Shamovsky V, Webber M, Weiser J, Williams M, Wu G, Stein L, Hermjakob H, D'Eustachio P (2016) The Reactome pathway knowledgebase. Nucleic Acids Res 44(D1):D481–D487. https://doi.org/10.1093/nar/gkv1351

    Article  PubMed  CAS  Google Scholar 

  • Ferres-Marco D, Gutierrez-Garcia I, Vallejo DM, Bolivar J, Gutierrez-Avino FJ, Dominguez M (2006) Epigenetic silencers and Notch collaborate to promote malignant tumours by Rb silencing. Nature 439(7075):430–436. doi:nature04376 [pii]. https://doi.org/10.1038/nature04376

    Article  PubMed  CAS  Google Scholar 

  • Fre S, Pallavi SK, Huyghe M, Laé M, Janssen K-P, Robine S, Artavanis-Tsakonas S, Louvard D (2009) Notch and Wnt signals cooperatively control cell proliferation and tumorigenesis in the intestine. Proc Natl Acad Sci U S A 106:6309–6314

    Article  PubMed  PubMed Central  Google Scholar 

  • Ghiassian SD, Menche J, Barabasi AL (2015) A DIseAse MOdule Detection (DIAMOnD) algorithm derived from a systematic analysis of connectivity patterns of disease proteins in the human interactome. PLoS Comput Biol 11(4):e1004120. https://doi.org/10.1371/journal.pcbi.1004120

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Giaimo BD, Oswald F, Borggrefe T (2017) Dynamic chromatin regulation at Notch target genes. Transcription 8(1):61–66. https://doi.org/10.1080/21541264.2016.1265702

    Article  PubMed  CAS  Google Scholar 

  • Giot L, Bader JS, Brouwer C, Chaudhuri A, Kuang B, Li Y, Hao YL, Ooi CE, Godwin B, Vitols E, Vijayadamodar G, Pochart P, Machineni H, Welsh M, Kong Y, Zerhusen B, Malcolm R, Varrone Z, Collis A, Minto M, Burgess S, McDaniel L, Stimpson E, Spriggs F, Williams J, Neurath K, Ioime N, Agee M, Voss E, Furtak K, Renzulli R, Aanensen N, Carrolla S, Bickelhaupt E, Lazovatsky Y, DaSilva A, Zhong J, Stanyon CA, Finley RL Jr, White KP, Braverman M, Jarvie T, Gold S, Leach M, Knight J, Shimkets RA, McKenna MP, Chant J, Rothberg JM (2003) A protein interaction map of Drosophila melanogaster. Science 302(5651):1727–1736. https://doi.org/10.1126/science.1090289. 1090289 [pii]

    Article  PubMed  CAS  Google Scholar 

  • Goh KI, Cusick ME, Valle D, Childs B, Vidal M, Barabasi AL (2007) The human disease network. Proc Natl Acad Sci U S A 104(21):8685–8690. https://doi.org/10.1073/pnas.0701361104

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Gramates LS, Marygold SJ, Santos GD, Urbano JM, Antonazzo G, Matthews BB, Rey AJ, Tabone CJ, Crosby MA, Emmert DB, Falls K, Goodman JL, Hu Y, Ponting L, Schroeder AJ, Strelets VB, Thurmond J, Zhou P, The FlyBase C (2017) FlyBase at 25: looking to the future. Nucleic Acids Res 45(D1):D663–D671. https://doi.org/10.1093/nar/gkw1016

    Article  PubMed  CAS  Google Scholar 

  • Greenwald I, Kovall R (2013) Notch signaling: genetics and structure. WormBook

    Google Scholar 

  • Guruharsha KG, Hori K, Obar RA, Artavanis-Tsakonas S (2014) Proteomic analysis of the Notch interactome. Methods Mol Biol 1187:181–192. https://doi.org/10.1007/978-1-4939-1139-4_14

    Article  PubMed  CAS  Google Scholar 

  • Guruharsha KG, Kankel MW, Artavanis-Tsakonas S (2012) The Notch signalling system: recent insights into the complexity of a conserved pathway. Nat Rev Genet 13:654–666

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Guruharsha KG, Rual J-F, Zhai B, Mintseris J, Vaidya P, Vaidya N, Beekman C, Wong C, Rhee DY, Cenaj O, Mckillip E, Shah S, Stapleton M, Wan KH, Yu C, Parsa B, Carlson JW, Chen X, Kapadia B, Vijayraghavan K, Gygi SP, Celniker SE, Obar RA, Artavanis-Tsakonas S (2011) A protein complex network of Drosophila melanogaster. Cell 147:690–703

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Ho DM, Artavanis-Tsakonas S (2016) The notch-mediated proliferation circuitry. Curr Top Dev Biol 116:17–33

    Article  PubMed  Google Scholar 

  • Ho DM, Pallavi SK, Artavanis-Tsakonas S (2015) The Notch-mediated hyperplasia circuitry in Drosophila reveals a Src-JNK signaling axis. elife 4:e05996

    Article  PubMed  PubMed Central  Google Scholar 

  • Hori K, Sen A, Kirchhausen T, Artavanis-Tsakonas S (2011) Synergy between the ESCRT-III complex and Deltex defines a ligand-independent Notch signal. J Cell Biol 195:1005–1015

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Hu Y, Flockhart I, Vinayagam A, Bergwitz C, Berger B, Perrimon N, Mohr SE (2011) An integrative approach to ortholog prediction for disease-focused and other functional studies. BMC Bioinf 12:357. https://doi.org/10.1186/1471-2105-12-357

    Article  Google Scholar 

  • Huttlin EL, Ting L, Bruckner RJ, Gebreab F, Gygi MP, Szpyt J, Tam S, Zarraga G, Colby G, Baltier K, Dong R, Guarani V, Vaites LP, Ordureau A, Rad R, Erickson BK, Wühr M, Chick J, Zhai B, Kolippakkam D, Mintseris J, Obar RA, Harris T, Artavanis-Tsakonas S, Sowa ME, De Camilli P, Paulo JA, Wade Harper J, Gygi SP (2015) The BioPlex network: a systematic exploration of the human interactome. Cell 162(2):425–440

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Huttlin EL, Bruckner RJ, Paulo JA, Cannon JR, Ting L, Baltier K, Colby G, Gebreab F, Gygi MP, Parzen H, Szpyt J, Tam S, Zarraga G, Pontano-Vaites L, Swarup S, White AE, Schweppe DK, Rad R, Erickson BK, Obar RA, Guruharsha KG, Li K, Artavanis-Tsakonas S, Gygi SP, Harper JW (2017) Architecture of the human interactome defines protein communities and disease networks. Nature 545(7655):505–509. https://doi.org/10.1038/nature22366. nature22366 [pii]

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Izrailit J, Berman HK, Datti A, Wrana JL, Reedijk M (2013) High throughput kinase inhibitor screens reveal TRB3 and MAPK-ERK/TGFβ pathways as fundamental Notch regulators in breast cancer. Proc Natl Acad Sci U S A 110:1714–1719

    Article  PubMed  PubMed Central  Google Scholar 

  • Jia D, Soylemez M, Calvin G, Bornmann R, Bryant J, Hanna C, Huang Y-C, Deng W-M (2015) A large-scale in vivo RNAi screen to identify genes involved in Notch-mediated follicle cell differentiation and cell cycle switches. Sci Rep 5. https://doi.org/10.1038/srep12328

  • Jung JG, Stoeck A, Guan B, Wu RC, Zhu H, Blackshaw S, Shih Ie M, Wang TL (2014) Notch3 interactome analysis identified WWP2 as a negative regulator of Notch3 signaling in ovarian cancer. PLoS Genet 10(10):e1004751. https://doi.org/10.1371/journal.pgen.1004751

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Kankel MW, Hurlbut GD, Upadhyay G, Yajnik V, Yedvobnick B, Artavanis-Tsakonas S (2007) Investigating the genetic circuitry of mastermind in Drosophila, a notch signal effector. Genetics 177:2493–2505

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Kanehisa M, Furumichi M, Mao T, Sato Y, Morishima K (2017) KEGG: new perspectives on genomes, pathways, diseases and drugs. Nucleic Acids Res 45(D1):D353–D361

    Article  CAS  PubMed  Google Scholar 

  • Kiaris H, Politi K, Grimm LM, Szabolcs M, Fisher P, Efstratiadis A, Artavanis-Tsakonas S (2004) Modulation of notch signaling elicits signature tumors and inhibits hras1-induced oncogenesis in the mouse mammary epithelium. Am J Pathol 165:695–705

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Klinakis A, Szabolcs M, Politi K, Kiaris H, Artavanis-Tsakonas S, Efstratiadis A (2006) Myc is a Notch1 transcriptional target and a requisite for Notch1-induced mammary tumorigenesis in mice. Proc Natl Acad Sci U S A 103:9262–9267

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Koch U, Radtke F (2010) Notch signaling in solid tumors. Curr Top Dev Biol 92:411–455

    Article  CAS  PubMed  Google Scholar 

  • Kopan R, Ilagan MXG (2009) The canonical Notch signaling pathway: unfolding the activation mechanism. Cell 137:216–233

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Kovall RA, Blacklow SC (2010) Mechanistic insights into Notch receptor signaling from structural and biochemical studies. Curr Top Dev Biol 92:31–71

    Article  CAS  PubMed  Google Scholar 

  • Kovall RA, Gebelein B, Sprinzak D, Kopan R (2017) The Canonical Notch Signaling Pathway: Structural and Biochemical Insights into Shape, Sugar, and Force. Dev Cell 41(3):228–241. doi:S1534-5807(17)30294-0 [pii]. https://doi.org/10.1016/j.devcel.2017.04.001

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Lage K (2014) Protein-protein interactions and genetic diseases: the interactome. Biochim Biophys Acta 1842(10):1971–1980. https://doi.org/10.1016/j.bbadis.2014.05.028

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Le Bras S, Rondanino C, Kriegel-Taki G, Dussert A, Le Borgne R (2012) Genetic identification of intracellular trafficking regulators involved in Notch-dependent binary cell fate acquisition following asymmetric cell division. J Cell Sci 125:4886–4901

    Article  CAS  PubMed  Google Scholar 

  • Lehner B, Crombie C, Tischler J, Fortunato A, Fraser AG (2006) Systematic mapping of genetic interactions in Caenorhabditis elegans identifies common modifiers of diverse signaling pathways. Nat Genet 38:896–903

    Article  CAS  PubMed  Google Scholar 

  • Levitan D, Greenwald I (1995) Facilitation of lin-12-mediated signalling by sel-12, a Caenorhabditis elegans S182 Alzheimer's disease gene. Nature 377:351–354

    Article  CAS  PubMed  Google Scholar 

  • Li S, Armstrong CM, Bertin N, Ge H, Milstein S, Boxem M, Vidalain PO, Han JD, Chesneau A, Hao T, Goldberg DS, Li N, Martinez M, Rual JF, Lamesch P, Xu L, Tewari M, Wong SL, Zhang LV, Berriz GF, Jacotot L, Vaglio P, Reboul J, Hirozane-Kishikawa T, Li Q, Gabel HW, Elewa A, Baumgartner B, Rose DJ, Yu H, Bosak S, Sequerra R, Fraser A, Mango SE, Saxton WM, Strome S, Van Den Heuvel S, Piano F, Vandenhaute J, Sardet C, Gerstein M, Doucette-Stamm L, Gunsalus KC, Harper JW, Cusick ME, Roth FP, Hill DE, Vidal M (2004) A map of the interactome network of the metazoan C. elegans. Science 303(5657):540–543. https://doi.org/10.1126/science.1091403. 1091403 [pii]

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Liu W, Li D, Wang J, Xie H, Zhu Y, He F (2009) Proteome-wide prediction of signal flow direction in protein interaction networks based on interacting domains. Mol Cell Proteomics 8(9):2063–2070. https://doi.org/10.1074/mcp.M800354-MCP200

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Lobry C, Oh P, Mansour MR, Look AT, Aifantis I (2014) Notch signaling: switching an oncogene to a tumor suppressor. Blood 123:2451–2459

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Louvi A, Artavanis-Tsakonas S (2012) Notch and disease: a growing field. Semin Cell Dev Biol 23:473–480

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Lundby A, Rossin EJ, Steffensen AB, Acha MR, Newton-Cheh C, Pfeufer A, Lynch SN, Consortium QTIIG, Olesen SP, Brunak S, Ellinor PT, Jukema JW, Trompet S, Ford I, Macfarlane PW, Krijthe BP, Hofman A, Uitterlinden AG, Stricker BH, Nathoe HM, Spiering W, Daly MJ, Asselbergs FW, van der Harst P, Milan DJ, de Bakker PI, Lage K, Olsen JV (2014) Annotation of loci from genome-wide association studies using tissue-specific quantitative interaction proteomics. Nat Methods 11(8):868–874. https://doi.org/10.1038/nmeth.2997

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Menche J, Sharma A, Kitsak M, Ghiassian SD, Vidal M, Loscalzo J, Barabasi AL (2015) Disease networks. Uncovering disease-disease relationships through the incomplete interactome. Sci 347(6224):1257601. https://doi.org/10.1126/science.1257601

    Article  CAS  Google Scholar 

  • Milacic M, Haw R, Rothfels K, Wu G, Croft D, Hermjakob H, D'Eustachio P, Stein L (2012) Annotating cancer variants and anti-cancer therapeutics in reactome. Cancers (Basel) 4(4):1180–1211. https://doi.org/10.3390/cancers4041180

    Article  CAS  Google Scholar 

  • Mourikis P, Lake RJ, Firnhaber CB, DeDecker BS (2010) Modifiers of notch transcriptional activity identified by genome-wide RNAi. BMC Dev Biol 10:107

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Mummery-Widmer JL, Yamazaki M, Stoeger T, Novatchkova M, Bhalerao S, Chen D, Dietzl G, Dickson BJ, Knoblich JA (2009) Genome-wide analysis of Notch signalling in Drosophila by transgenic RNAi. Nature 458:987–992

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Musse AA, Meloty-Kapella L, Weinmaster G (2012) Notch ligand endocytosis: mechanistic basis of signaling activity. Semin Cell Dev Biol 23:429–436

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Orchard S, Ammari M, Aranda B, Breuza L, Briganti L, Broackes-Carter F, Campbell NH, Chavali G, Chen C, del-Toro N, Duesbury M, Dumousseau M, Galeota E, Hinz U, Iannuccelli M, Jagannathan S, Jimenez R, Khadake J, Lagreid A, Licata L, Lovering RC, Meldal B, Melidoni AN, Milagros M, Peluso D, Perfetto L, Porras P, Raghunath A, Ricard-Blum S, Roechert B, Stutz A, Tognolli M, van Roey K, Cesareni G, Hermjakob H (2014) The MIntAct project--IntAct as a common curation platform for 11 molecular interaction databases. Nucleic Acids Res 42(Database issue):D358–D363. https://doi.org/10.1093/nar/gkt1115

    Article  PubMed  CAS  Google Scholar 

  • Pallavi SK, Ho DM, Hicks C, Miele L, Artavanis-Tsakonas S (2012) Notch and Mef2 synergize to promote proliferation and metastasis through JNK signal activation in Drosophila. EMBO J 31:2895–2907

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Parks AL, Cook KR, Belvin M, Dompe NA, Fawcett R, Huppert K, Tan LR, Winter CG, Bogart KP, Deal JE, Deal-Herr ME, Grant D, Marcinko M, Miyazaki WY, Robertson S, Shaw KJ, Tabios M, Vysotskaia V, Zhao L, Andrade RS, Edgar KA, Howie E, Killpack K, Milash B, Norton A, Thao D, Whittaker K, Winner MA, Friedman L, Margolis J, Singer MA, Kopczynski C, Curtis D, Kaufman TC, Plowman GD, Duyk G, Francis-Lang HL (2004) Systematic generation of high-resolution deletion coverage of the Drosophila melanogaster genome. Nat Genet 36:288–292

    Article  CAS  PubMed  Google Scholar 

  • Rana NA, Haltiwanger RS (2011) Fringe benefits: functional and structural impacts of O-glycosylation on the extracellular domain of Notch receptors. Curr Opin Struct Biol 21:583–589

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Ranganathan P, Weaver KL, Capobianco AJ (2011) Notch signalling in solid tumours: a little bit of everything but not all the time. Nat Rev Cancer 11:338–351

    Article  CAS  PubMed  Google Scholar 

  • Rhee DY, Cho D-Y, Zhai B, Slattery M, Ma L, Mintseris J, Wong CY, White KP, Celniker SE, Przytycka TM, Gygi SP, Obar RA, Artavanis-Tsakonas S (2014) Transcription factor networks in Drosophila melanogaster. Cell Rep 8:2031–2043

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Rolland T, Taşan 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 A-R, 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 J-C, Vega K, Walsh J, Cusick ME, Yu X, Barabási A-L, Iakoucheva LM, Aloy P, Rivas JDL, Tavernier J, Calderwood MA, Hill DE, Hao T, Roth FP, Vidal M (2014) A proteome-scale map of the human interactome network. Cell 159(5):1212–1226

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • 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 (2005) Towards a proteome-scale map of the human protein-protein interaction network. Nature 437(7062):1173–1178. doi:nature04209 [pii]. https://doi.org/10.1038/nature04209

    Article  PubMed  CAS  Google Scholar 

  • Sahni N, Yi S, Taipale M, Fuxman Bass JI, Coulombe-Huntington J, Yang F, Peng J, Weile J, Karras GI, Wang Y, Kovacs 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, Barabasi AL, Charloteaux B, Hill DE, Hao T, Roth FP, Xia Y, Walhout AJ, Lindquist S, Vidal M (2015) Widespread macromolecular interaction perturbations in human genetic disorders. Cell 161(3):647–660. https://doi.org/10.1016/j.cell.2015.04.013

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Saj A, Arziman Z, Stempfle D, van Belle W, Sauder U, Horn T, Dürrenberger M, Paro R, Boutros M, Merdes G (2010) A combined ex vivo and in vivo RNAi screen for notch regulators in Drosophila reveals an extensive notch interaction network. Dev Cell 18:862–876

    Article  CAS  PubMed  Google Scholar 

  • Shalaby NA, Parks AL, Morreale EJ, Osswalt MC, Pfau KM, Pierce EL, Muskavitch MAT (2009) A screen for modifiers of notch signaling uncovers Amun, a protein with a critical role in sensory organ development. Genetics 182:1061–1076

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • 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, Birchmeier W, Lehrach H, Wanker EE (2005) A human protein-protein interaction network: a resource for annotating the proteome. Cell 122(6):957–968. doi:S0092-8674(05)00866-4 [pii]. https://doi.org/10.1016/j.cell.2005.08.029

    Article  PubMed  CAS  Google Scholar 

  • Szklarczyk D, Franceschini A, Wyder S, Forslund K, Heller D, Huerta-Cepas J, Simonovic M, Roth A, Santos A, Tsafou KP, Kuhn M, Bork P, Jensen LJ, von Mering C (2015) STRING v10: protein-protein interaction networks, integrated over the tree of life. Nucleic Acids Res 43 (Database issue):D447–452. doi:10.1093/nar/gku1003

  • The ORFeome Collaboration (2016) A genome-scale human ORF-clone resource. Nature Methods 13(3):191–192

    Google Scholar 

  • Thibault ST, Singer MA, Miyazaki WY, Milash B, Dompe NA, Singh CM, Buchholz R, Demsky M, Fawcett R, Francis-Lang HL, Ryner L, Cheung LM, Chong A, Erickson C, Fisher WW, Greer K, Hartouni SR, Howie E, Jakkula L, Joo D, Killpack K, Laufer A, Mazzotta J, Smith RD, Stevens LM, Stuber C, Tan LR, Ventura R, Woo A, Zakrajsek I, Zhao L, Chen F, Swimmer C, Kopczynski C, Duyk G, Winberg ML, Margolis J (2004) A complementary transposon tool kit for Drosophila melanogaster using P and piggyBac. Nat Genet 36:283–287

    Article  CAS  PubMed  Google Scholar 

  • Toba G, Ohsako T, Miyata N, Ohtsuka T, Seong KH, Aigaki T (1999) The gene search system. A method for efficient detection and rapid molecular identification of genes in Drosophila melanogaster. Genetics 151(2):725–737

    PubMed  PubMed Central  CAS  Google Scholar 

  • Turinsky AL, Razick S, Turner B, Donaldson IM, Wodak SJ (2011) Interaction databases on the same page. Nat Biotechnol 29(5):391–393. https://doi.org/10.1038/nbt.1867

    Article  PubMed  CAS  Google Scholar 

  • Veraksa A, Bauer A, Artavanis-Tsakonas S (2005) Analyzing protein complexes in Drosophila with tandem affinity purification-mass spectrometry. Dev Dyn 232(3):827–834. https://doi.org/10.1002/dvdy.20272

    Article  PubMed  CAS  Google Scholar 

  • Vinayagam A, Hu Y, Kulkarni M, Roesel C, Sopko R, Mohr SE, Perrimon N (2013) Protein complex-based analysis framework for high-throughput data sets. Sci Signal 6(264):rs5. https://doi.org/10.1126/scisignal.2003629

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Vinayagam A, Kulkarni MM, Sopko R, Sun X, Hu Y, Nand A, Villalta C, Moghimi A, Yang X, Mohr SE, Hong P, Asara JM, Perrimon N (2016) An integrative analysis of the InR/PI3K/Akt network identifies the dynamic response to insulin signaling. Cell Rep 16(11):3062–3074. https://doi.org/10.1016/j.celrep.2016.08.029

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Vinayagam A, Zirin J, Roesel C, Hu Y, Yilmazel B, Samsonova AA, Neumuller RA, Mohr SE, Perrimon N (2014) Integrating protein-protein interaction networks with phenotypes reveals signs of interactions. Nat Methods 11(1):94–99. https://doi.org/10.1038/nmeth.2733

    Article  PubMed  CAS  Google Scholar 

  • 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(suppl_2):W214–W220

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Yatim A, Benne C, Sobhian B, Laurent-Chabalier S, Deas O, Judde JG, Lelievre JD, Levy Y, Benkirane M (2012) NOTCH1 nuclear interactome reveals key regulators of its transcriptional activity and oncogenic function. Mol Cell 48(3):445–458. https://doi.org/10.1016/j.molcel.2012.08.022

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Yu H, Braun P, Yildirim MA, Lemmens I, Venkatesan K, Sahalie J, Hirozane-Kishikawa T, Gebreab F, Li N, Simonis N, Hao T, Rual J-F, Dricot A, Vazquez A, Murray RR, Simon C, Tardivo L, Tam S, Svrzikapa N, Fan C, de Smet A-S, Motyl A, Hudson ME, Park J, Xin X, Cusick ME, Moore T, Boone C, Snyder M, Roth FP, Barabasi A-L, Tavernier J, Hill DE, Vidal M (2008) High-quality binary protein interaction map of the yeast interactome network. Science 322(5898):104–110

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Yu C, Wan KH, Hammonds AS, Stapleton M, Carlson JW, Celniker SE (2011) Development of expression-ready constructs for generation of proteomic libraries. Methods Mol Biol 723:257–272. https://doi.org/10.1007/978-1-61779-043-0_17

    Article  PubMed  CAS  Google Scholar 

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Acknowledgements

The authors thank the members of the Artavanis-Tsakonas lab for helpful discussions and comments. This work was supported by NIH grants 5R01CA098402 and 5RO1HG003616 to S.A.-T.

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Correspondence to Spyros Artavanis-Tsakonas .

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Ho, D.M., Guruharsha, K.G., Artavanis-Tsakonas, S. (2018). The Notch Interactome: Complexity in Signaling Circuitry. In: Borggrefe, T., Giaimo, B. (eds) Molecular Mechanisms of Notch Signaling. Advances in Experimental Medicine and Biology, vol 1066. Springer, Cham. https://doi.org/10.1007/978-3-319-89512-3_7

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