TY - JOUR AU - Newman, M. E. AU - Girvan, M. PY - 2004 DA - 2004// TI - Finding and evaluating community structure in networks JO - Phys. Rev. E VL - 69 UR - https://doi.org/10.1103/PhysRevE.69.026113 DO - 10.1103/PhysRevE.69.026113 ID - Newman2004 ER - TY - JOUR AU - Shi, J. AU - Malik, J. PY - 2000 DA - 2000// TI - Normalized cuts and image segmentation JO - IEEE Trans. Pattern Anal. Mach. Intell VL - 22 UR - https://doi.org/10.1109/34.868688 DO - 10.1109/34.868688 ID - Shi2000 ER - TY - JOUR AU - Wang, Y. AU - Qian, X. PY - 2013 DA - 2013// TI - Functional module identification in protein interaction networks by interaction patterns JO - Bioinformatics VL - 30 ID - Wang2013 ER - TY - JOUR AU - White, S. AU - Smyth, P. PY - 2005 DA - 2005// TI - A spectral clustering approach to finding communities in graph JO - SDM VL - 5 ID - White2005 ER - TY - JOUR AU - Wang, Y. AU - Qian, X. PY - 2014 DA - 2014// TI - Joint clustering of protein interaction networks through Markov random walk JO - BMC Syst. Biol VL - 8 UR - https://doi.org/10.1186/1752-0509-8-S1-S9 DO - 10.1186/1752-0509-8-S1-S9 ID - Wang2014 ER - TY - STD TI - K Yu, S Yu, V Tresp, in Advances in Neural Information Processing Systems. Soft clustering on graphs, (2005), p. 05. ID - ref6 ER - TY - CHAP AU - Wang, Y. AU - Qian, X. PY - 2014 DA - 2014// TI - Biological network clustering by robust NMF BT - Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics PB - ACM CY - New York, NY, USA ID - Wang2014 ER - TY - JOUR AU - Holland, P. W. AU - Leinhardt, S. PY - 1976 DA - 1976// TI - Local structure in social networks JO - Sociol. Method VL - 7 UR - https://doi.org/10.2307/270703 DO - 10.2307/270703 ID - Holland1976 ER - TY - JOUR AU - Hofman, J. K. AU - Wiggins, C. H. PY - 2008 DA - 2008// TI - Bayesian approach to network modularity JO - Phys. Rev. Lett VL - 100 UR - https://doi.org/10.1103/PhysRevLett.100.258701 DO - 10.1103/PhysRevLett.100.258701 ID - Hofman2008 ER - TY - JOUR AU - Kumar, R. AU - Novak, J. AU - Raghavan, P. AU - Tomkins, A. PY - 2005 DA - 2005// TI - On the bursty evolution of Blogspace JO - World Wide Web. VL - 8 UR - https://doi.org/10.1007/s11280-004-4872-4 DO - 10.1007/s11280-004-4872-4 ID - Kumar2005 ER - TY - CHAP AU - Chi, Y. AU - Song, X. AU - Zhou, D. AU - Hino, K. AU - Tseng, B. L. PY - 2007 DA - 2007// TI - Evolutionary spectral clustering by incorporating temporal smoothness BT - Proceedings of the 13th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining PB - ACM CY - New York, NY, USA UR - https://doi.org/10.1145/1281192.1281212 DO - 10.1145/1281192.1281212 ID - Chi2007 ER - TY - CHAP AU - Lin, Y. -. R. AU - Chi, Y. AU - Zhu, S. AU - Sundaram, H. AU - Tseng, B. L. PY - 2008 DA - 2008// TI - FacetNet: a framework for analyzing communities and their evolutions in dynamic networks BT - Proceedings of the 17th International Conference on World Wide Web PB - ACM CY - New York, NY, USA UR - https://doi.org/10.1145/1367497.1367590 DO - 10.1145/1367497.1367590 ID - Lin2008 ER - TY - JOUR AU - Yang, T. AU - Chi, Y. AU - Zhu, S. AU - Gong, Y. AU - Jin, R. PY - 2011 DA - 2011// TI - Detecting communities and their evolutions in dynamic social networks—a Bayesian approach JO - Mach. Learn VL - 82 UR - https://doi.org/10.1007/s10994-010-5214-7 DO - 10.1007/s10994-010-5214-7 ID - Yang2011 ER - TY - JOUR AU - Salwinski, L. AU - Miller, C. S. AU - Smith, A. J. AU - Pettit, F. K. AU - Bowie, J. U. AU - Eisenberg, D. PY - 2004 DA - 2004// TI - The database of interacting proteins: 2004 update JO - Nucleic Acids Res VL - 32 UR - https://doi.org/10.1093/nar/gkh086 DO - 10.1093/nar/gkh086 ID - Salwinski2004 ER - TY - JOUR AU - Breitkreutz, B. -. J. AU - Stark, C. AU - Reguly, T. AU - Boucher, L. AU - Breitkreutz, A. AU - Livstone, M. AU - Oughtred, R. AU - Lackner, D. H. AU - Bähler, J. AU - Wood, V. PY - 2008 DA - 2008// TI - The BioGRID interaction database: 2008 update JO - Nucleic Acids Res VL - 36 ID - Breitkreutz2008 ER - TY - JOUR AU - Geman, S. AU - Geman, D. PY - 1984 DA - 1984// TI - Stochastic relaxation, Gibbs distributions, and the Bayesian restoration of images JO - IEEE Trans. Pattern Anal. Mach. Intell VL - PAMI-6 UR - https://doi.org/10.1109/TPAMI.1984.4767596 DO - 10.1109/TPAMI.1984.4767596 ID - Geman1984 ER - TY - JOUR AU - Chib, S. AU - Greenberg, E. PY - 1995 DA - 1995// TI - Understanding the Metropolis-Hastings algorithm JO - The American Statistician VL - 49 ID - Chib1995 ER - TY - BOOK AU - Bishop, C. M. PY - 2006 DA - 2006// TI - Pattern recognition and machine learning PB - Springer CY - New York ID - Bishop2006 ER - TY - JOUR AU - Nepusz, T. AU - Yu, H. AU - Paccanaro, A. PY - 2012 DA - 2012// TI - Detecting overlapping protein complexes in protein-protein interaction networks JO - Nat. Methods VL - 9 UR - https://doi.org/10.1038/nmeth.1938 DO - 10.1038/nmeth.1938 ID - Nepusz2012 ER - TY - JOUR AU - Hong, E. L. AU - Balakrishnan, R. AU - Dong, Q. AU - Christie, K. R. AU - Park, J. AU - Binkley, G. AU - Costanzo, M. C. AU - Dwight, S. S. AU - Engel, S. R. AU - Fisk, D. G. PY - 2008 DA - 2008// TI - Gene Ontology annotations at SGD: new data sources and annotation methods JO - Nucleic Acids Res VL - 36 ID - Hong2008 ER - TY - JOUR AU - Mewes, H. -. W. AU - Amid, C. AU - Arnold, R. AU - Frishman, D. AU - Güldener, U. AU - Mannhaupt, G. AU - Münsterkötter, M. AU - Pagel, P. AU - Strack, N. AU - Stümpflen, V. PY - 2004 DA - 2004// TI - MIPS: analysis and annotation of proteins from whole genomes JO - Nucleic Acids Res VL - 32 UR - https://doi.org/10.1093/nar/gkh092 DO - 10.1093/nar/gkh092 ID - Mewes2004 ER - TY - JOUR AU - Brohee, S. AU - Van Helden, J. PY - 2006 DA - 2006// TI - Evaluation of clustering algorithms for protein-protein interaction networks JO - BMC Bioinformatics VL - 7 UR - https://doi.org/10.1186/1471-2105-7-488 DO - 10.1186/1471-2105-7-488 ID - Brohee2006 ER - TY - JOUR AU - Maslov, S. AU - Sneppen, K. PY - 2002 DA - 2002// TI - Specificity and stability in topology of protein networks JO - Science VL - 296 UR - https://doi.org/10.1126/science.1065103 DO - 10.1126/science.1065103 ID - Maslov2002 ER - TY - JOUR AU - Shannon, P. AU - Markiel, A. AU - Ozier, O. AU - Baliga, N. S. AU - Wang, J. T. AU - Ramage, D. AU - Amin, N. AU - Schwikowski, B. AU - Ideker, T. PY - 2003 DA - 2003// TI - Cytoscape: a software environment for integrated models of biomolecular interaction networks JO - Genome Res VL - 13 UR - https://doi.org/10.1101/gr.1239303 DO - 10.1101/gr.1239303 ID - Shannon2003 ER -