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Science 303 (5657): 540-543

Copyright © 2004 by the American Association for the Advancement of Science

A Map of the Interactome Network of the Metazoan C. elegans

Siming Li,1* Christopher M. Armstrong,1* Nicolas Bertin,1* Hui Ge,1* Stuart Milstein,1* Mike Boxem,1* Pierre-Olivier Vidalain,1* Jing-Dong J. Han,1* Alban Chesneau,1,2* Tong Hao,1 Debra S. Goldberg,3 Ning Li,1 Monica Martinez,1 Jean-François Rual,1,4 Philippe Lamesch,1,4 Lai Xu,5{dagger} Muneesh Tewari,1 Sharyl L. Wong,3 Lan V. Zhang,3 Gabriel F. Berriz,3 Laurent Jacotot,1{ddagger} Philippe Vaglio,1{ddagger} Jérôme Reboul,1§ Tomoko Hirozane-Kishikawa,1 Qianru Li,1 Harrison W. Gabel,1 Ahmed Elewa,1|| Bridget Baumgartner,5 Debra J. Rose,6 Haiyuan Yu,7 Stephanie Bosak,8 Reynaldo Sequerra,8 Andrew Fraser,9 Susan E. Mango,10 William M. Saxton,6 Susan Strome,6 Sander van den Heuvel,11 Fabio Piano,12 Jean Vandenhaute,4 Claude Sardet,2 Mark Gerstein,7 Lynn Doucette-Stamm,8 Kristin C. Gunsalus,12 J. Wade Harper,5{dagger} Michael E. Cusick,1 Frederick P. Roth,3 David E. Hill,1 Marc Vidal1#

Abstract: To initiate studies on how protein-protein interaction (or "interactome") networks relate to multicellular functions, we have mapped a large fraction of the Caenorhabditis elegans interactome network. Starting with a subset of metazoan-specific proteins, more than 4000 interactions were identified from high-throughput, yeast two-hybrid (HT=Y2H) screens. Independent coaffinity purification assays experimentally validated the overall quality of this Y2H data set. Together with already described Y2H interactions and interologs predicted in silico, the current version of the Worm Interactome (WI5) map contains ~5500 interactions. Topological and biological features of this interactome network, as well as its integration with phenome and transcriptome data sets, lead to numerous biological hypotheses.

1 Dana-Farber Cancer Institute and Department of Genetics, Harvard Medical School, 44 Binney Street, Boston, MA 02115, USA.
2 Institut de Génétique Moléculaire, Centre National de la Recherche Scientifique UMR 5535, 1919 Route de Mende, 34293 Montpellier Cedex 5, France.
3 Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, 250 Longwood Avenue, Boston, MA 02115, USA.
4 Unité de Recherche en Biologie Moléculaire, Facultés Notre-Dame de la Paix, 61 Rue de Bruxelles, 5000 Namur, Belgium.
5 Verna and Marrs Department of Biochemistry and Molecular Biology, Program in Cell and Molecular Biology, Biophysics, and Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX 77030, USA.
6 Department of Biology, Indiana University, Jordan Hall 142, 1001 East Third Street, Bloomington, IN 47405, USA.
7 Department of Molecular Biophysics and Biochemistry and Department of Computer Science, Yale University, 266 Whitney Avenue, New Haven, CT 06520, USA.
8 Agencourt Bioscience Corporation, 100 Cummings Center, Suite 107G, Beverly, MA 01915, USA.
9 The Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.
10 Huntsman Cancer Institute, University of Utah, 2000 Circle of Hope, Salt Lake City, UT 84112, USA.
11 Massachusetts General Hospital Cancer Center, Building 149, 13th Street, Charlestown, MA 02129, USA.
12 Department of Biology, New York University, 1009 Silver Building, 100 Washington Square East, New York, NY 10003, USA.

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* These authors contributed equally to this work.

{dagger} Present address: Department of Pathology, Harvard Medical School, 200 Longwood Avenue, Boston, MA 02115, USA.

{ddagger} Present address: Modul-Bio, 232 Boulevard Sainte-Marguerite, 13009 Marseille, France.

§ Present address: INSERM, Unité 119, Institut Paoli Calmettes, 13009 Marseille, France.

|| Present address: Program in Gene Function and Expression, University of Massachusetts, 55 Lake Avenue, North Worcester, MA 01605, USA.

Present address: Center for Cancer Systems Biology and Department of Cancer Biology, Dana-Farber Cancer Institute and Department of Genetics, Harvard Medical School, 44 Binney Street, Boston, MA 02115, USA.

# To whom correspondence should be addressed. E-mail: marc_vidal{at}

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   Abstract »    Full Text »    PDF »
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N. A. Cookson, W. H. Mather, T. Danino, O. Mondragon-Palomino, R. J. Williams, L. S. Tsimring, and J. Hasty (2014)
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   Abstract »    Full Text »    PDF »
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   Abstract »    Full Text »    PDF »
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S. J. L. van Wijk, S. J. de Vries, P. Kemmeren, A. Huang, R. Boelens, A. M. J. J. Bonvin, and H. T. M. Timmers (2014)
Mol Syst Biol 5, 295
   Abstract »    Full Text »    PDF »
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M. Barenco, D. Brewer, E. Papouli, D. Tomescu, R. Callard, J. Stark, and M. Hubank (2014)
Mol Syst Biol 5, 327
   Abstract »    Full Text »    PDF »
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A. K. Ramani, Z. Li, G. T. Hart, M. W. Carlson, D. R. Boutz, and E. M. Marcotte (2014)
Mol Syst Biol 4, 180
   Abstract »    Full Text »    PDF »
Constraints imposed by non-functional protein-protein interactions on gene expression and proteome size.
J. Zhang, S. Maslov, and E. I. Shakhnovich (2014)
Mol Syst Biol 4, 210
   Abstract »    Full Text »    PDF »
Hepatitis C virus infection protein network.
B. de Chassey, V. Navratil, L. Tafforeau, M. S. Hiet, A. Aublin-Gex, S. Agaugue, G. Meiffren, F. Pradezynski, B. F. Faria, T. Chantier, et al. (2014)
Mol Syst Biol 4, 230
   Abstract »    Full Text »    PDF »
Large-scale mapping of human protein-protein interactions by mass spectrometry.
R. M. Ewing, P. Chu, F. Elisma, H. Li, P. Taylor, S. Climie, L. McBroom-Cerajewski, M. D. Robinson, L. O'Connor, M. Li, et al. (2014)
Mol Syst Biol 3, 89
   Abstract »    Full Text »    PDF »
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H. Xue, B. Xian, D. Dong, K. Xia, S. Zhu, Z. Zhang, L. Hou, Q. Zhang, Y. Zhang, and J.-D. J. Han (2014)
Mol Syst Biol 3, 147
   Abstract »    Full Text »    PDF »
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Mol Syst Biol 2, 2006.0003
   Abstract »    Full Text »    PDF »
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X. Xin, D. Gfeller, J. Cheng, R. Tonikian, L. Sun, A. Guo, L. Lopez, A. Pavlenco, A. Akintobi, Y. Zhang, et al. (2014)
Mol Syst Biol 9, 652
   Abstract »    Full Text »    PDF »
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   Abstract »    Full Text »    PDF »
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S. R. G. Polley, A. Kuzmanov, J. Kuang, J. Karpel, V. Lazetic, E. I. Karina, B. L. Veo, and D. S. Fay (2014)
Genetics 196, 211-223
   Abstract »    Full Text »    PDF »
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E. Belotti, J. Polanowska, A. M. Daulat, S. Audebert, V. Thome, J.-C. Lissitzky, F. Lembo, K. Blibek, S. Omi, N. Lenfant, et al. (2013)
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   Abstract »    Full Text »    PDF »
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M. Mikula, K. Bomsztyk, K. Goryca, K. Chojnowski, and J. Ostrowski (2013)
J. Biol. Chem. 288, 24788-24798
   Abstract »    Full Text »    PDF »
Cross-Species Protein Interactome Mapping Reveals Species-Specific Wiring of Stress Response Pathways.
J. Das, T. V. Vo, X. Wei, J. C. Mellor, V. Tong, A. G. Degatano, X. Wang, L. Wang, N. A. Cordero, N. Kruer-Zerhusen, et al. (2013)
Science Signaling 6, ra38
   Abstract »    Full Text »    PDF »
The Ubiquitin-fold Modifier 1 (Ufm1) Cascade of Caenorhabditis elegans.
P. Hertel, J. Daniel, D. Stegehake, H. Vaupel, S. Kailayangiri, C. Gruel, C. Woltersdorf, and E. Liebau (2013)
J. Biol. Chem. 288, 10661-10671
   Abstract »    Full Text »    PDF »
Related F-box proteins control cell death in Caenorhabditis elegans and human lymphoma.
M. Chiorazzi, L. Rui, Y. Yang, M. Ceribelli, N. Tishbi, C. W. Maurer, S. M. Ranuncolo, H. Zhao, W. Xu, W.-C. C. Chan, et al. (2013)
PNAS 110, 3943-3948
   Abstract »    Full Text »    PDF »
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M. Schuldiner and J. S. Weissman (2013)
Cold Spring Harb Perspect Biol 5, a013284
   Abstract »    Full Text »    PDF »
An Evolutionarily Conserved Innate Immunity Protein Interaction Network.
L. De Arras, A. Seng, B. Lackford, M. R. Keikhaee, B. Bowerman, J. H. Freedman, D. A. Schwartz, and S. Alper (2013)
J. Biol. Chem. 288, 1967-1978
   Abstract »    Full Text »    PDF »
PrePPI: a structure-informed database of protein-protein interactions.
Q. C. Zhang, D. Petrey, J. I. Garzon, L. Deng, and B. Honig (2013)
Nucleic Acids Res. 41, D828-D833
   Abstract »    Full Text »    PDF »
Protein-protein interaction networks: unraveling the wiring of molecular machines within the cell.
J. De Las Rivas and C. Fontanillo (2012)
Briefings in Functional Genomics 11, 489-496
   Abstract »    Full Text »    PDF »
The retinitis pigmentosa 28 protein FAM161A is a novel ciliary protein involved in intermolecular protein interaction and microtubule association.
F. Zach, F. Grassmann, T. Langmann, N. Sorusch, U. Wolfrum, and H. Stohr (2012)
Hum. Mol. Genet. 21, 4573-4586
   Abstract »    Full Text »    PDF »
Charting the Landscape of Tandem BRCT Domain-Mediated Protein Interactions.
N. T. Woods, R. D. Mesquita, M. Sweet, M. A. Carvalho, X. Li, Y. Liu, H. Nguyen, C. E. Thomas, E. S. Iversen Jr., S. Marsillac, et al. (2012)
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   Abstract »    Full Text »    PDF »
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V. E. Belozerov, Z.-Y. Lin, A.-C. Gingras, J. C. McDermott, and K. W. Michael Siu (2012)
Mol. Cell. Biol. 32, 3695-3706
   Abstract »    Full Text »    PDF »
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D. Baas, S. Caussanel-Boude, A. Guiraud, F. Calhabeu, E. Delaune, F. Pilot, E. Chopin, I. Machuca-Gayet, A. Vernay, S. Bertrand, et al. (2012)
J. Cell Sci. 125, 3790-3800
   Abstract »    Full Text »    PDF »
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S. R. G. Polley and D. S. Fay (2012)
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   Abstract »    Full Text »    PDF »
Multiplex assay for condition-dependent changes in protein-protein interactions.
U. Schlecht, M. Miranda, S. Suresh, R. W. Davis, and R. P. St.Onge (2012)
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   Abstract »    Full Text »    PDF »
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B. Stynen, H. Tournu, J. Tavernier, and P. Van Dijck (2012)
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   Abstract »    Full Text »    PDF »
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V. Pancaldi, O. S. Sarac, C. Rallis, J. R. McLean, M. Prevorovsky, K. Gould, A. Beyer, and J. Bahler (2012)
g3 2, 453-467
   Abstract »    Full Text »    PDF »
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   Abstract »    Full Text »    PDF »
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D. D. Anderson, C. F. Woeller, E.-P. Chiang, B. Shane, and P. J. Stover (2012)
J. Biol. Chem. 287, 7051-7062
   Abstract »    Full Text »    PDF »
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V. A. Hale, E. L. Guiney, L. Y. Goldberg, J. H. Haduong, C. S. Kwartler, K. W. Scangos, and C. Goutte (2012)
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   Abstract »    Full Text »    PDF »
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S. Sun, X. Dong, Y. Fu, and W. Tian (2012)
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   Abstract »    Full Text »    PDF »
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P. Tuffery and P. Derreumaux (2012)
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   Abstract »    Full Text »    PDF »
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L. Tafforeau, T. Chantier, F. Pradezynski, J. Pellet, P. E. Mangeot, P.-O. Vidalain, P. Andre, C. Rabourdin-Combe, and V. Lotteau (2011)
J. Virol. 85, 13010-13018
   Abstract »    Full Text »    PDF »
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S. Dossena, R. Gandini, G. Tamma, V. Vezzoli, C. Nofziger, M. Tamplenizza, E. Salvioni, E. Bernardinelli, G. Meyer, G. Valenti, et al. (2011)
J. Biol. Chem. 286, 40659-40670
   Abstract »    Full Text »    PDF »
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H. Yang, Y. Ke, J. Wang, Y. Tan, S. K. Myeni, D. Li, Q. Shi, Y. Yan, H. Chen, Z. Guo, et al. (2011)
Infect. Immun. 79, 4413-4424
   Abstract »    Full Text »    PDF »
ANAT: A Tool for Constructing and Analyzing Functional Protein Networks.
N. Yosef, E. Zalckvar, A. D. Rubinstein, M. Homilius, N. Atias, L. Vardi, I. Berman, H. Zur, A. Kimchi, E. Ruppin, et al. (2011)
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   Abstract »    Full Text »    PDF »
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S. Wuchty, G. H. Siwo, and M. T. Ferdig (2011)
Mol. Cell. Proteomics 10, M111.009035
   Abstract »    Full Text »    PDF »
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A. Defays, A. David, A. de Gassart, F. De Angelis Rigotti, T. Wenger, V. Camossetto, P. Brousset, T. Petrella, M. Dalod, E. Gatti, et al. (2011)
Blood 118, 609-617
   Abstract »    Full Text »    PDF »
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M. E. Sardiu and M. P. Washburn (2011)
J. Biol. Chem. 286, 23645-23651
   Abstract »    Full Text »    PDF »
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K. Hopp, C. M. Heyer, C. J. Hommerding, S. A. Henke, J. L. Sundsbak, S. Patel, P. Patel, M. B. Consugar, P. G. Czarnecki, T. J. Gliem, et al. (2011)
Hum. Mol. Genet. 20, 2524-2534
   Abstract »    Full Text »    PDF »
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L. Cardarelli, K. L. Maxwell, and A. R. Davidson (2011)
PNAS 108, 10168-10173
   Abstract »    Full Text »    PDF »
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Y. Sakai, C. A. Shaw, B. C. Dawson, D. V. Dugas, Z. Al-Mohtaseb, D. E. Hill, and H. Y. Zoghbi (2011)
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   Abstract »    Full Text »    PDF »
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W. Qian, X. He, E. Chan, H. Xu, and J. Zhang (2011)
PNAS 108, 8725-8730
   Abstract »    Full Text »    PDF »
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I. Carmi-Levy, A. Motzik, Y. Ofir-Birin, Z. Yagil, C. M. Yang, D. M. Kemeny, J. M. Han, S. Kim, G. Kay, H. Nechushtan, et al. (2011)
Mol. Cell. Biol. 31, 2111-2121
   Abstract »    Full Text »    PDF »
Connectedness of PPI network neighborhoods identifies regulatory hub proteins.
A. D. Fox, B. J. Hescott, A. C. Blumer, and D. K. Slonim (2011)
Bioinformatics 27, 1135-1142
   Abstract »    Full Text »    PDF »
The Predicted Arabidopsis Interactome Resource and Network Topology-Based Systems Biology Analyses.
M. Lin, X. Zhou, X. Shen, C. Mao, and X. Chen (2011)
PLANT CELL 23, 911-922
   Abstract »    Full Text »    PDF »
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J. J. Kahle, N. Gulbahce, C. A. Shaw, J. Lim, D. E. Hill, A.-L. Barabasi, and H. Y. Zoghbi (2011)
Hum. Mol. Genet. 20, 510-527
   Abstract »    Full Text »    PDF »
Functional convergence of signalling by GPI-anchored and anchorless forms of a salamander protein implicated in limb regeneration.
R. A. Blassberg, A. Garza-Garcia, A. Janmohamed, P. B. Gates, and J. P. Brockes (2011)
J. Cell Sci. 124, 47-56
   Abstract »    Full Text »    PDF »
PAIR: the predicted Arabidopsis interactome resource.
M. Lin, X. Shen, and X. Chen (2011)
Nucleic Acids Res. 39, D1134-D1140
   Abstract »    Full Text »    PDF »
iRefWeb: interactive analysis of consolidated protein interaction data and their supporting evidence.
B. Turner, S. Razick, A. L. Turinsky, J. Vlasblom, E. K. Crowdy, E. Cho, K. Morrison, I. M. Donaldson, and S. J. Wodak (2010)
Database 2010, baq023
   Abstract »    Full Text »    PDF »
Nucleoside diphosphate kinase Nm23-H1 regulates chromosomal stability by activating the GTPase dynamin during cytokinesis.
A. R. Conery, S. Sever, and E. Harlow (2010)
PNAS 107, 15461-15466
   Abstract »    Full Text »    PDF »
Predicting genetic modifier loci using functional gene networks.
I. Lee, B. Lehner, T. Vavouri, J. Shin, A. G. Fraser, and E. M. Marcotte (2010)
Genome Res. 20, 1143-1153
   Abstract »    Full Text »    PDF »
A genome-wide map of human genetic interactions inferred from radiation hybrid genotypes.
A. Lin, R. T. Wang, S. Ahn, C. C. Park, and D. J. Smith (2010)
Genome Res. 20, 1122-1132
   Abstract »    Full Text »    PDF »
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F. Pilot-Storck, E. Chopin, J.-F. Rual, A. Baudot, P. Dobrokhotov, M. Robinson-Rechavi, C. Brun, M. E. Cusick, D. E. Hill, L. Schaeffer, et al. (2010)
Mol. Cell. Proteomics 9, 1578-1593
   Abstract »    Full Text »    PDF »
WASH and WAVE actin regulators of the Wiskott-Aldrich syndrome protein (WASP) family are controlled by analogous structurally related complexes.
D. Jia, T. S. Gomez, Z. Metlagel, J. Umetani, Z. Otwinowski, M. K. Rosen, and D. D. Billadeau (2010)
PNAS 107, 10442-10447
   Abstract »    Full Text »    PDF »
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A. B. Mak, Z. Ni, J. A. Hewel, G. I. Chen, G. Zhong, K. Karamboulas, K. Blakely, S. Smiley, E. Marcon, D. Roudeva, et al. (2010)
Mol. Cell. Proteomics 9, 811-823
   Abstract »    Full Text »    PDF »
Dynamic O-GlcNAc cycling at promoters of Caenorhabditis elegans genes regulating longevity, stress, and immunity.
D. C. Love, S. Ghosh, M. A. Mondoux, T. Fukushige, P. Wang, M. A. Wilson, W. B. Iser, C. A. Wolkow, M. W. Krause, and J. A. Hanover (2010)
PNAS 107, 7413-7418
   Abstract »    Full Text »    PDF »
Phylogenetic Analysis of Gene Structure and Alternative Splicing in {alpha}-Actinins.
M. Lek, D. G. MacArthur, N. Yang, and K. N. North (2010)
Mol. Biol. Evol. 27, 773-780
   Abstract »    Full Text »    PDF »
Glycogen Synthase Kinase 3{beta} Interaction Protein Functions as an A-kinase Anchoring Protein.
C. Hundsrucker, P. Skroblin, F. Christian, H.-M. Zenn, V. Popara, M. Joshi, J. Eichhorst, B. Wiesner, F. W. Herberg, B. Reif, et al. (2010)
J. Biol. Chem. 285, 5507-5521
   Abstract »    Full Text »    PDF »
Pandora, a PAthway and Network DiscOveRy Approach based on common biological evidence.
K. X. Zhang and B. F. F. Ouellette (2010)
Bioinformatics 26, 529-535
   Abstract »    Full Text »    PDF »
Gene-centered regulatory networks.
H. E. Arda and A. J.M. Walhout (2010)
Briefings in Functional Genomics 9, 4-12
   Abstract »    Full Text »    PDF »
Evaluation of linguistic features useful in extraction of interactions from PubMed; Application to annotating known, high-throughput and predicted interactions in I2D.
Y. Niu, D. Otasek, and I. Jurisica (2010)
Bioinformatics 26, 111-119
   Abstract »    Full Text »    PDF »
Inferred Biomolecular Interaction Server--a web server to analyze and predict protein interacting partners and binding sites.
B. A. Shoemaker, D. Zhang, R. R. Thangudu, M. Tyagi, J. H. Fong, A. Marchler-Bauer, S. H. Bryant, T. Madej, and A. R. Panchenko (2010)
Nucleic Acids Res. 38, D518-D524
   Abstract »    Full Text »    PDF »
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M. Mutwil, B. Usadel, M. Schutte, A. Loraine, O. Ebenhoh, and S. Persson (2010)
Plant Physiology 152, 29-43
   Abstract »    Full Text »    PDF »
Gene divergence and pathway duplication in the metabolic network of yeast and digital organisms.
P. Gerlee, T. Lundh, B. Zhang, and A. R. A. Anderson (2009)
J R Soc Interface 6, 1233-1245
   Abstract »    Full Text »    PDF »
Fungal physiology - a future perspective.
R. A. Wilson and N. J. Talbot (2009)
Microbiology 155, 3810-3815
   Abstract »    Full Text »    PDF »
A Genomewide RNAi Screen for Genes That Affect the Stability, Distribution and Function of P Granules in Caenorhabditis elegans.
D. L. Updike and S. Strome (2009)
Genetics 183, 1397-1419
   Abstract »    Full Text »    PDF »
A Role for Dynein in the Inhibition of Germ Cell Proliferative Fate.
M. Dorsett and T. Schedl (2009)
Mol. Cell. Biol. 29, 6128-6139
   Abstract »    Full Text »    PDF »
Mitotic Regulation of the Stability of Microtubule Plus-end Tracking Protein EB3 by Ubiquitin Ligase SIAH-1 and Aurora Mitotic Kinases.
R. Ban, H. Matsuzaki, T. Akashi, G. Sakashita, H. Taniguchi, S.-Y. Park, H. Tanaka, K. Furukawa, and T. Urano (2009)
J. Biol. Chem. 284, 28367-28381
   Abstract »    Full Text »    PDF »
Proteome-wide Prediction of Signal Flow Direction in Protein Interaction Networks Based on Interacting Domains.
W. Liu, D. Li, J. Wang, H. Xie, Y. Zhu, and F. He (2009)
Mol. Cell. Proteomics 8, 2063-2070
   Abstract »    Full Text »    PDF »
Transcriptional Wiring of Cell Wall-Related Genes in Arabidopsis.
M. Mutwil, C. Ruprecht, F. M. Giorgi, M. Bringmann, B. Usadel, and S. Persson (2009)
Mol Plant 2, 1015-1024
   Abstract »    Full Text »    PDF »
Computational Identification of Potential Molecular Interactions in Arabidopsis.
M. Lin, B. Hu, L. Chen, P. Sun, Y. Fan, P. Wu, and X. Chen (2009)
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   Abstract »    Full Text »    PDF »
Identifying the topology of protein complexes from affinity purification assays.
C. C. Friedel and R. Zimmer (2009)
Bioinformatics 25, 2140-2146
   Abstract »    Full Text »    PDF »
Using RNA Interference to Identify Specific Modifiers of a Temperature-Sensitive, Embryonic-Lethal Mutation in the Caenorhabditis elegans Ubiquitin-Like Nedd8 Protein Modification Pathway E1-Activating Gene rfl-1.
M. Dorfman, J.-E. Gomes, S. O'Rourke, and B. Bowerman (2009)
Genetics 182, 1035-1049
   Abstract »    Full Text »    PDF »
A complex-centric view of protein network evolution.
N. Yosef, M. Kupiec, E. Ruppin, and R. Sharan (2009)
Nucleic Acids Res. 37, e88
   Abstract »    Full Text »    PDF »
SNOW, a web-based tool for the statistical analysis of protein-protein interaction networks.
P. Minguez, S. Gotz, D. Montaner, F. Al-Shahrour, and J. Dopazo (2009)
Nucleic Acids Res. 37, W109-W114
   Abstract »    Full Text »    PDF »
Global networks of functional coupling in eukaryotes from comprehensive data integration.
A. Alexeyenko and E. L.L. Sonnhammer (2009)
Genome Res. 19, 1107-1116
   Abstract »    Full Text »    PDF »
Deciphering Signaling Outcomes from a System of Complex Networks.
R. C. Hsueh, M. Natarajan, I. Fraser, B. Pond, J. Liu, S. Mumby, H. Han, L. I. Jiang, M. I. Simon, R. Taussig, et al. (2009)
Science Signaling 2, ra22
   Abstract »    Full Text »    PDF »
Progress and challenges in predicting protein-protein interaction sites.
I. Ezkurdia, L. Bartoli, P. Fariselli, R. Casadio, A. Valencia, and M. L. Tress (2009)
Brief Bioinform 10, 233-246
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The ALP-Enigma Protein ALP-1 Functions in Actin Filament Organization to Promote Muscle Structural Integrity in Caenorhabditis elegans.
H.-F. Han and M. C. Beckerle (2009)
Mol. Biol. Cell 20, 2361-2370
   Abstract »    Full Text »    PDF »
Control of Rapsyn Stability by the CUL-3-containing E3 Ligase Complex.
S. Nam, K. Min, H. Hwang, H.-o. Lee, J. H. Lee, J. Yoon, H. Lee, S. Park, and J. Lee (2009)
J. Biol. Chem. 284, 8195-8206
   Abstract »    Full Text »    PDF »

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