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Evidence for dynamically organized modularity in the yeast protein–protein interaction network
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Cites
Error and attack tolerance of complex networks
Albert, R., Jeong, H., & Barabási, A.-L. (2000) · Nature · doi:10.1038/35019019 · Cited by 7,534
A comprehensive analysis of protein–protein interactions in Saccharomyces cerevisiae
Uetz, P., Giot, L., Cagney, G., Mansfield, T. A., Judson, R. S., Knight, J. R., Lockshon, D., Narayan, V., Srinivasan, M., Pochart, P., et al. (2000) · Nature · doi:10.1038/35001009 · Cited by 4,706
Functional profiling of the Saccharomyces cerevisiae genome
Giaever, G., Chu, A. M., Ni, L., Connelly, C., Riles, L., Véronneau, S., Dow, S., Lucau-Danila, A., Anderson, K., André, B., et al. (2002) · Nature · doi:10.1038/nature00935 · Cited by 4,316
Global analysis of protein localization in budding yeast
Huh, W.-K., Falvo, J. V., Gerke, L. C., Carroll, A. S., Howson, R. W., Weissman, J. S., & O'Shea, E. K. (2003) · Nature · doi:10.1038/nature02026 · Cited by 4,248 · cited 1×
“We estimated the localization diversity of partners of hubs by using a proteome-wide cellular localization data se”
MethodRole of duplicate genes in genetic robustness against null mutations
Gu, Z., Steinmetz, L. M., Gu, X., Scharfe, C., Davis, R. W., & Li, W.-H. (2003) · Nature · doi:10.1038/nature01198 · Cited by 889
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A General Framework for Weighted Gene Co-Expression Network Analysis
Zhang, B., & Horvath, S. (2005) · Statistical Applications in Genetics and Molecular Biology · doi:10.2202/1544-6115.1128 · Cited by 5,684
Network medicine: a network-based approach to human disease
Barabási, A.-L., Gulbahce, N., & Loscalzo, J. (2011) · Nature Reviews Genetics · doi:10.1038/nrg2918 · Cited by 5,034
Network pharmacology: the next paradigm in drug discovery
Hopkins, A. L. (2008) · Nature Chemical Biology · doi:10.1038/nchembio.118 · Cited by 4,622
Functional cartography of complex metabolic networks
Guimerà, R., & Nunes Amaral, L. A. (2005) · Nature · doi:10.1038/nature03288 · Cited by 3,983
Goh, K.-I., Cusick, M. E., Valle, D., Childs, B., Vidal, M., & Barabási, A.-L. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0701361104 · Cited by 3,242
Self-citationThe structure and dynamics of multilayer networks
Boccaletti, S., Bianconi, G., Criado, R., del Genio, C. I., Gómez-Gardeñes, J., Romance, M., Sendiña-Nadal, I., Wang, Z., & Zanin, M. (2014) · Physics Reports · doi:10.1016/j.physrep.2014.07.001 · Cited by 3,125
Holme, P., & Saramäki, J. (2012) · Physics Reports · doi:10.1016/j.physrep.2012.03.001 · Cited by 2,736
Interactome Networks and Human Disease
Vidal, M., Cusick, M. E., & Barabási, A.-L. (2011) · Cell · doi:10.1016/j.cell.2011.02.016 · Cited by 1,771
Self-citationHigh-Quality Binary Protein Interaction Map of the Yeast Interactome Network
Yu, H., Braun, P., Yıldırım, M. A., Lemmens, I., Venkatesan, K., Sahalie, J., Hirozane-Kishikawa, T., Gebreab, F., Li, N., Simonis, N., et al. (2008) · Science · doi:10.1126/science.1158684 · Cited by 1,392
Self-citationFlexible nets: The roles of intrinsic disorder in protein interaction networks
Dunker, A. K., Cortese, M. S., Romero, P., Iakoucheva, L. M., & Uversky, V. N. (2005) · The FEBS Journal · doi:10.1111/j.1742-4658.2005.04948.x · Cited by 1,122
Robustness of cellular functions
Stelling, J., Sauer, U., Szallasi, Z., Doyle, F. J., & Doyle, J. (2004) · Cell · doi:10.1016/j.cell.2004.09.008 · Cited by 1,049
Showing your ID: intrinsic disorder as an ID for recognition, regulation and cell signaling
Uversky, V. N., Oldfield, C. J., & Dunker, A. K. (2005) · Journal of Molecular Recognition · doi:10.1002/jmr.747 · Cited by 847
Toward a Comprehensive Atlas of the Physical Interactome of Saccharomyces cerevisiae
Collins, S. R., Kemmeren, P., Zhao, X.-C., Greenblatt, J. F., Spencer, F., Holstege, F. C. P., Weissman, J. S., & Krogan, N. J. (2007) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m600381-mcp200 · Cited by 795
Co-regulatory networks of human serum proteins link genetics to disease
Emilsson, V., Ilkov, M., Lamb, J. R., Finkel, N., Gudmundsson, E. F., Pitts, R., Hoover, H., Gudmundsdottir, V., Horman, S. R., Aspelund, T., et al. (2018) · Science · doi:10.1126/science.aaq1327 · Cited by 680
Analysis of oncogenic signaling networks in glioblastoma identifies ASPM as a molecular target
Horvath, S., Zhang, B., Carlson, M., Lu, K. V., Zhu, S., Felciano, R. M., Laurance, M. F., Zhao, W., Qi, S., Chen, Z., et al. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0608396103 · Cited by 641
Integrative approaches for finding modular structure in biological networks
Mitra, K., Carvunis, A.-R., Ramesh, S. K., & Ideker, T. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3552 · Cited by 535
Integrating Genetic and Network Analysis to Characterize Genes Related to Mouse Weight
Ghazalpour, A., Doss, S., Zhang, B., Wang, S., Plaisier, C., Castellanos, R., Brozell, A., Schadt, E. E., Drake, T. A., Lusis, A. J., et al. (2006) · PLoS Genetics · doi:10.1371/journal.pgen.0020130 · Cited by 462
Understanding network concepts in modules
Dong, J., & Horvath, S. (2007) · BMC Systems Biology · doi:10.1186/1752-0509-1-24 · Cited by 455
Yang, Y., Han, L., Yuan, Y., Li, J., Hei, N., & Liang, H. (2014) · Nature Communications · doi:10.1038/ncomms4231 · Cited by 423
Deep learning in bioinformatics: Introduction, application, and perspective in the big data era
Li, Y., Huang, C., Ding, L., Li, Z., Pan, Y., & Gao, X. (2019) · Methods · doi:10.1016/j.ymeth.2019.04.008 · Cited by 401
Epstein–Barr virus and virus human protein interaction maps
Calderwood, M. A., Venkatesan, K., Xing, L., Chase, M. R., Vazquez, A., Holthaus, A. M., Ewence, A. E., Li, N., Hirozane-Kishikawa, T., Hill, D. E., et al. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0702332104 · Cited by 388
Self-citationDisorder and Sequence Repeats in Hub Proteins and Their Implications for Network Evolution
Dosztányi, Z., Chen, J., Dunker, A. K., Simon, I., & Tompa, P. (2006) · Journal of Proteome Research · doi:10.1021/pr060171o · Cited by 341
Comprehensive curation and analysis of global interaction networks in Saccharomyces cerevisiae
Reguly, T., Breitkreutz, A., Boucher, L., Breitkreutz, B.-J., Hon, G. C., Myers, C. L., Parsons, A., Friesen, H., Oughtred, R., Tong, A., et al. (2006) · Journal of Biology · doi:10.1186/jbiol36 · Cited by 326
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Schmid, E. M., & McMahon, H. T. (2007) · Nature · doi:10.1038/nature06031 · Cited by 315
When is hub gene selection better than standard meta-analysis?
Langfelder, P., Mischel, P. S., & Horvath, S. (2013) · PLoS ONE · doi:10.1371/journal.pone.0061505 · Cited by 313
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Kar, G., Gursoy, A., & Keskin, O. (2009) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1000601 · Cited by 235
The Powerful Law of the Power Law and Other Myths in Network Biology
Lima-Mendez, G., & van Helden, J. (2009) · Molecular BioSystems · doi:10.1039/b908681a · Cited by 210
Degeneracy: A design principle for achieving robustness and evolvability
Whitacre, J., & Bender, A. (2010) · Journal of Theoretical Biology · doi:10.1016/j.jtbi.2009.11.008 · Cited by 197
Protein-protein interaction networks and biology—what's the connection?
Hakes, L., Pinney, J. W., Robertson, D. L., & Lovell, S. C. (2008) · Nature Biotechnology · doi:10.1038/nbt0108-69 · Cited by 200
Shadows of complexity: what biological networks reveal about epistasis and pleiotropy
Tyler, A. L., Asselbergs, F. W., Williams, S. M., & Moore, J. H. (2009) · BioEssays · doi:10.1002/bies.200800022 · Cited by 185
Genetic regulatory networks programming hematopoietic stem cells and erythroid lineage specification
Swiers, G., Patient, R., & Loose, M. (2006) · Developmental Biology · doi:10.1016/j.ydbio.2006.02.051 · Cited by 168
Protein–protein interaction networks: how can a hub protein bind so many different partners?
Tsai, C.-J., Ma, B., & Nussinov, R. (2009) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2009.07.007 · Cited by 138
The G protein-coupled receptor heterodimer network (GPCR-HetNet) and its hub components
Borroto-Escuela, D., Brito, I., Romero-Fernandez, W., Di Palma, M., Oflijan, J., Skieterska, K., Duchou, J., Van Craenenbroeck, K., Suárez-Boomgaard, D., Rivera, A., et al. (2014) · International Journal of Molecular Sciences · doi:10.3390/ijms15058570 · Cited by 134
Cao, M., Zhang, H., Park, J., Daniels, N. M., Crovella, M. E., Cowen, L. J., & Hescott, B. (2013) · PLoS ONE · doi:10.1371/journal.pone.0076339 · Cited by 131
Evolution of resilience in protein interactomes across the tree of life
Zitnik, M., Sosič, R., Feldman, M. W., & Leskovec, J. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1818013116 · Cited by 130
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Shvetcov, A., Johnson, E. C. B., Winchester, L. M., Walker, K. A., Wilkins, H. M., Thompson, T. G., Rothstein, J. D., Krish, V., Imam, F. B., The Global Neurodegeneration Proteomics Consortium (GNPC), et al. (2025) · Nature Medicine · doi:10.1038/s41591-025-03835-z · Cited by 78
Small-molecule perturbation of competing interactions between c-Myc and Max
Follis, A. V., Hammoudeh, D. I., Daab, A. T., & Metallo, S. J. (2009) · Bioorganic & Medicinal Chemistry Letters · doi:10.1016/j.bmcl.2008.12.025 · Cited by 60
Nagy, P. D., Pogany, J., & Lin, J.-Y. (2014) · Trends in Microbiology · doi:10.1016/j.tim.2014.02.003 · Cited by 55
Single-Cell Computational Strategies for Lineage Reconstruction in Tissue Systems
Herring, C. A., Chen, B., McKinley, E. T., & Lau, K. S. (2018) · Cellular and Molecular Gastroenterology and Hepatology · doi:10.1016/j.jcmgh.2018.01.023 · Cited by 35
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Tényi, Á., Cano, I., Marabita, F., Kiani, N., Kalko, S. G., Barreiro, E., de Atauri, P., Cascante, M., Gomez-Cabrero, D., & Roca, J. (2018) · Journal of Translational Medicine · doi:10.1186/s12967-018-1405-y · Cited by 40
Structural and dynamical analysis of biological networks
Klein, C., Marino, A., Sagot, M.-F., Vieira Milreu, P., & Brilli, M. (2012) · Briefings in Functional Genomics · doi:10.1093/bfgp/els030 · Cited by 34
Graph spectral analysis of protein interaction network evolution
Thorne, T., & Stumpf, M. P. H. (2012) · Journal of The Royal Society Interface · doi:10.1098/rsif.2012.0220 · Cited by 30
Networks of Networks: An Essay on Multi-Level Biological Organization
Uversky, V. N., & Giuliani, A. (2021) · Frontiers in Genetics · doi:10.3389/fgene.2021.706260 · Cited by 28
Early Systems Biology and Prebiotic Networks
Shenhav, B., Solomon, A., Lancet, D., & Kafri, R. (2005) · Lecture Notes in Computer Science · doi:10.1007/978-3-540-32126-2_2 · Cited by 13
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Chen, S.-J., Cheng, J.-L., Lee, S.-A., Wang, T.-Y., Jang, J.-Y., & Chen, K.-C. (2021) · Scientific Reports · doi:10.1038/s41598-021-00388-2 · Cited by 10
Jaemthaworn, T., Kalapanulak, S., & Saithong, T. (2021) · Scientific Reports · doi:10.1038/s41598-021-86806-x · Cited by 7
Co-regulation of translation in protein complexes
Siwiak, M., & Zielenkiewicz, P. (2015) · Biology Direct · doi:10.1186/s13062-015-0048-7 · Cited by 8
Mihalič, F., Åberg, E., Farkhondehkish, P., Theys, N., Andersson, E., & Jemth, P. (2023) · Protein Science · doi:10.1002/pro.4684 · Cited by 6
A structural database of chain–chain and domain–domain interfaces of proteins
Sen, N., & Madhusudhan, M. S. (2022) · Protein Science · doi:10.1002/pro.4406 · Cited by 4
Metadata
- Authors
- Han, J.-D. J., Bertin, N., Hao, T., Goldberg, D. S., Berriz, G. F., Zhang, L. V., Dupuy, D., Walhout, A. J. M., Cusick, M. E., Roth, F. P., & Vidal, M.
- Venue
- Nature
- Published
- 2004-06-09
- Volume
- 430
- Issue
- 6995
- Pages
- 88-93
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- OpenAlex
- W2012852001
- Cited by
- 1,798
- References
- 5
- FWCI
- 32.58
- Type
- journal article
- Language
- en
- Open access
- closed
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