TY - JOUR AU - Kitano, H. PY - 2002 DA - 2002// TI - Computational systems biology JO - Nature VL - 420 UR - https://doi.org/10.1038/nature01254 DO - 10.1038/nature01254 ID - Kitano2002 ER - TY - JOUR AU - Oltvai, Z. N. AU - Barabasi, A. L. PY - 2002 DA - 2002// TI - Life’s complexity pyramid JO - Science VL - 298 UR - https://doi.org/10.1126/science.1078563 DO - 10.1126/science.1078563 ID - Oltvai2002 ER - TY - JOUR AU - Barabasi, A. L. AU - Oltvai, Z. N. PY - 2004 DA - 2004// TI - Network biology: understanding the cell’s functional organization JO - Nat Rev Genet VL - 5 UR - https://doi.org/10.1038/nrg1272 DO - 10.1038/nrg1272 ID - Barabasi2004 ER - TY - JOUR AU - Kininmonth, S. AU - van Oppen, M. AU - Castine, S. PY - 2012 DA - 2012// TI - The small genetic world of Seriatopora hystrix JO - Netw Biol VL - 2 ID - Kininmonth2012 ER - TY - JOUR AU - Zhang, W. J. PY - 2012 DA - 2012// TI - How to construct the statistic network? An association network of herbaceous plants constructed from field sampling JO - Netw Biol VL - 2 ID - Zhang2012 ER - TY - JOUR AU - Zhang, W. J. PY - 2012 DA - 2012// TI - Modeling community succession and assembly: A novel method for network evolution JO - Netw Biol VL - 2 ID - Zhang2012 ER - TY - JOUR AU - Ibrahim, S. S. AU - Eldeeb, M. A. R. AU - Rady, M. A. H. PY - 2011 DA - 2011// TI - The role of protein interaction domains in the human cancer network JO - Netw Biol VL - 1 ID - Ibrahim2011 ER - TY - BOOK AU - Newman, M. E. J. PY - 2010 DA - 2010// TI - Networks: An Introduction PB - Oxford University Press CY - UK UR - https://doi.org/10.1093/acprof:oso/9780199206650.001.0001 DO - 10.1093/acprof:oso/9780199206650.001.0001 ID - Newman2010 ER - TY - JOUR AU - Dormann, C. F. PY - 2011 DA - 2011// TI - How to be a specialist? Quantifying specialisation in pollination networks JO - Netw Biol VL - 1 ID - Dormann2011 ER - TY - JOUR AU - Martinez-Antonio, A. PY - 2011 DA - 2011// TI - Escherichia coli transcriptional regulatory network JO - Netw Biol VL - 1 ID - Martinez-Antonio2011 ER - TY - JOUR AU - Tacutu, R. AU - Budovsky, A. AU - Yanai, H. PY - 2011 DA - 2011// TI - Immunoregulatory network and cancer-associated genes: Molecular links and relevance to aging JO - Netw Biol VL - 1 ID - Tacutu2011 ER - TY - JOUR AU - Zhang, W. J. PY - 2011 DA - 2011// TI - Constructing ecological interaction networks by correlation analysis: hints from community sampling JO - Netw Biol VL - 1 ID - Zhang2011 ER - TY - JOUR AU - Mamun, M. A. AU - Rahman, M. S. AU - Islam, M. F. AU - Honi, U. AU - Sobhani, M. E. PY - 2011 DA - 2011// TI - Molecular biology and the riddle of cancer: The 'Tom and Jerry’ show JO - Oncol Rev VL - 5 UR - https://doi.org/10.4081/oncol.2011.215 DO - 10.4081/oncol.2011.215 ID - Mamun2011 ER - TY - JOUR AU - Mirzarezaee, M. AU - Araabi, B. N. AU - Sadeghi, M. PY - 2010 DA - 2010// TI - Comparison of hubs in effective normal and tumor protein interaction networks JO - Basic Clin Neurosci VL - 2 ID - Mirzarezaee2010 ER - TY - JOUR AU - Zhou, T. T. PY - 2012 DA - 2012// TI - Network systems biology for targeted cancer therapies JO - Chin J Cancer VL - 31 UR - https://doi.org/10.5732/cjc.011.10282 DO - 10.5732/cjc.011.10282 ID - Zhou2012 ER - TY - JOUR AU - Junker, B. H. AU - Koschutzki, D. AU - Schreiber, F. PY - 2006 DA - 2006// TI - Exploration of biological network centralities with CentiBiN JO - BMC Bioinforma VL - 7 UR - https://doi.org/10.1186/1471-2105-7-219 DO - 10.1186/1471-2105-7-219 ID - Junker2006 ER - TY - CHAP AU - Newman, M. E. J. PY - 2006 DA - 2006// TI - Modularity and community structure in networks BT - Proceedings of the National Academy of Sciences ID - Newman2006 ER - TY - JOUR AU - Fortunato, S. PY - 2010 DA - 2010// TI - Community detection in graphs JO - Phys Rep VL - 486 UR - https://doi.org/10.1016/j.physrep.2009.11.002 DO - 10.1016/j.physrep.2009.11.002 ID - Fortunato2010 ER - TY - JOUR AU - Gavin, A. C. AU - Aloy, P. AU - Grandi, P. PY - 2006 DA - 2006// TI - Proteome survey reveals modularity of the yeast cell machinery JO - Nature VL - 440 UR - https://doi.org/10.1038/nature04532 DO - 10.1038/nature04532 ID - Gavin2006 ER - TY - JOUR AU - Krogan, N. J. AU - Cagney, G. AU - Yu, H. Y. PY - 2006 DA - 2006// TI - Global landscape of protein complexes in the yeast Saccharomyces cerevisiae JO - Nature VL - 440 UR - https://doi.org/10.1038/nature04670 DO - 10.1038/nature04670 ID - Krogan2006 ER - TY - JOUR AU - Rahman, K. M. T. AU - Islam, M. F. AU - Banik, R. S. AU - Honi, U. AU - Diba, F. S. AU - Sumi, S. S. AU - Kabir, S. M. T. AU - Akhter, M. S. PY - 2013 DA - 2013// TI - Changes in protein interaction networks between normal and cancer conditions: Total chaos or ordered disorder? JO - Netw Biol VL - 3 ID - Rahman2013 ER - TY - JOUR AU - Bader, G. D. AU - Hogue, C. W. V. PY - 2003 DA - 2003// TI - An automated method for finding molecular complexes in large protein interaction networks JO - BMC Bioinforma VL - 4 ID - Bader2003 ER - TY - JOUR AU - Kovacs, I. A. AU - Palotai, R. AU - Szalay-Beko, M. AU - Csermely, P. PY - 2010 DA - 2010// TI - Community landscapes: a novel, integrative approach for the determination of overlapping network modules JO - PLoS ONE VL - 7 UR - https://doi.org/10.1371/journal.pone.0012528 DO - 10.1371/journal.pone.0012528 ID - Kovacs2010 ER - TY - JOUR AU - Szalay-Beko, M. AU - Palotai, R. AU - Szappanos, B. AU - Kovacs, I. A. AU - Papp, B. AU - Csermely, P. PY - 2012 DA - 2012// TI - ModuLand plug-in for Cytoscape: Determination of hierarchical layers of overlapping network modules and community centrality JO - Bioinform VL - 28 UR - https://doi.org/10.1093/bioinformatics/bts352 DO - 10.1093/bioinformatics/bts352 ID - Szalay-Beko2012 ER - TY - JOUR AU - Zhang, Y. AU - Luoh, S. M. AU - Hon, L. S. AU - Baertsch, R. AU - Wood, W. I. AU - Zhang, Z. PY - 2007 DA - 2007// TI - GeneHub-GEPIS: digital expression profiling for normal and cancer tissues based on an integrated gene database JO - Nucleic Acids Res VL - 35 UR - https://doi.org/10.1093/nar/gkm381 DO - 10.1093/nar/gkm381 ID - Zhang2007 ER - TY - JOUR AU - McDowall, M. D. AU - Scott, M. S. AU - Barton, G. J. PY - 2009 DA - 2009// TI - PIPs: Human protein-protein interactions prediction database JO - Nucleic Acids Res VL - 37 UR - https://doi.org/10.1093/nar/gkn870 DO - 10.1093/nar/gkn870 ID - McDowall2009 ER - TY - JOUR AU - Scott, M. S. AU - Barton, G. J. PY - 2007 DA - 2007// TI - Probabilistic prediction and ranking of human protein-protein interactions JO - BMC Bioinforma VL - 8 UR - https://doi.org/10.1186/1471-2105-8-239 DO - 10.1186/1471-2105-8-239 ID - Scott2007 ER - TY - JOUR AU - Szklarczyk, D. AU - Franceschini, A. AU - Kuhn, M. AU - Simonovic, M. AU - Roth, A. AU - Minguez, P. AU - Doerks, T. AU - Stark, M. AU - Muller, J. AU - Bork, P. AU - Jensen, L. J. AU - von Mering, C. PY - 2010 DA - 2010// TI - The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored JO - Nucleic Acids Res VL - 39 UR - https://doi.org/10.1093/nar/gkq973 DO - 10.1093/nar/gkq973 ID - Szklarczyk2010 ER - TY - JOUR AU - Jensen, L. J. AU - Kuhn, M. AU - Stark, M. AU - Chaffron, S. AU - Creevey, C. AU - Muller, J. AU - Doerks, T. AU - Julien, P. AU - Roth, A. AU - Simonovic, M. AU - Bork, P. AU - Von Mering, C. PY - 2009 DA - 2009// TI - STRING 8--a global view on proteins and their functional interactions in 630 organisms JO - Nucleic Acids Res VL - 37 UR - https://doi.org/10.1093/nar/gkn760 DO - 10.1093/nar/gkn760 ID - Jensen2009 ER - TY - JOUR AU - Von Mering, C. AU - Jensen, L. J. AU - Kuhn, M. AU - Chaffron, S. AU - Doerks, T. AU - Krüger, B. AU - Snel, B. AU - Bork, P. PY - 2007 DA - 2007// TI - STRING 7--recent developments in the integration and prediction of protein interactions JO - Nucleic Acids Res VL - 35 UR - https://doi.org/10.1093/nar/gkl825 DO - 10.1093/nar/gkl825 ID - Von Mering2007 ER - TY - JOUR AU - Von Mering, C. AU - Jensen, L. J. AU - Snel, B. AU - Hooper, S. D. AU - Krupp, M. AU - Foglierini, M. AU - Jouffre, N. AU - Huynen, M. A. AU - Bork, P. PY - 2005 DA - 2005// TI - STRING: known and predicted protein-protein associations, integrated and transferred across organisms JO - Nucleic Acids Res VL - 33 UR - https://doi.org/10.1093/nar/gki005 DO - 10.1093/nar/gki005 ID - Von Mering2005 ER - TY - JOUR AU - von Mering, C. AU - Huynen, M. AU - Jaeggi, D. AU - Schmidt, S. AU - Bork, P. AU - Snel, B. PY - 2003 DA - 2003// TI - STRING: a database of predicted functional associations between proteins JO - Nucleic Acids Res VL - 31 UR - https://doi.org/10.1093/nar/gkg034 DO - 10.1093/nar/gkg034 ID - von Mering2003 ER - TY - JOUR AU - Snel, B. AU - Lehmann, G. AU - Bork, P. AU - Huynen, M. A. PY - 2000 DA - 2000// TI - STRING: a web-server to retrieve and display the repeatedly occurring neighbourhood of a gene JO - Nucleic Acids Res VL - 28 UR - https://doi.org/10.1093/nar/28.18.3442 DO - 10.1093/nar/28.18.3442 ID - Snel2000 ER - TY - JOUR AU - Smoot, M. AU - Ono, K. AU - Ruscheinski, J. AU - Wang, P. L. AU - Ideker, T. PY - 2011 DA - 2011// TI - Cytoscape 2.8: new features for data integration and network visualization JO - Bioinform VL - 27 UR - https://doi.org/10.1093/bioinformatics/btq675 DO - 10.1093/bioinformatics/btq675 ID - Smoot2011 ER - TY - JOUR AU - Cline, M. S. AU - Smoot, M. AU - Cerami, E. AU - Kuchinsky, A. PY - 2007 DA - 2007// TI - Integration of biological networks and gene expression data using Cytoscape JO - Nat Protoc VL - 2 UR - https://doi.org/10.1038/nprot.2007.324 DO - 10.1038/nprot.2007.324 ID - Cline2007 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 - TY - JOUR AU - Gavin, A. C. AU - Bosche, M. AU - Krause, R. AU - Grandi, P. AU - Marzioch, M. AU - Bauer, A. PY - 2002 DA - 2002// TI - Functional organization of the yeast proteome by systematic analysis of protein complexes JO - Nature VL - 415 UR - https://doi.org/10.1038/415141a DO - 10.1038/415141a ID - Gavin2002 ER - TY - JOUR AU - Tong, A. H. AU - Drees, B. AU - Nardelli, G. AU - Bader, G. D. AU - Brannetti, B. AU - Castagnoli, L. PY - 2002 DA - 2002// TI - A combined experimental and computational strategy to define protein interaction networks for peptide recognition modules JO - Science VL - 295 UR - https://doi.org/10.1126/science.1064987 DO - 10.1126/science.1064987 ID - Tong2002 ER - TY - JOUR AU - Jonsson, P. F. AU - Bates, P. A. PY - 2006 DA - 2006// TI - Global topological features of cancer proteins in the human interactome JO - Bioinform VL - 22 UR - https://doi.org/10.1093/bioinformatics/btl390 DO - 10.1093/bioinformatics/btl390 ID - Jonsson2006 ER - TY - JOUR AU - Sun, J. AU - Zhao, Z. PY - 2010 DA - 2010// TI - A comparative study of cancer proteins in the human protein-protein interaction network JO - BMC Genomics VL - 11 UR - https://doi.org/10.1186/1471-2164-11-S3-S5 DO - 10.1186/1471-2164-11-S3-S5 ID - Sun2010 ER - TY - JOUR AU - Ding, D. W. PY - 2012 DA - 2012// TI - Identification of crucial nodes in biological networks JO - Netw Biol VL - 2 ID - Ding2012 ER - TY - JOUR AU - Ding, D. W. AU - Liu, T. AU - Lu, K. Z. PY - 2008 DA - 2008// TI - Centralization of complex networks: Application to metabolic networks JO - Comput Appl Chem VL - 25 ID - Ding2008 ER - TY - JOUR AU - Ding, D. W. AU - Li, L. N. PY - 2009 DA - 2009// TI - Why giant strong component is so important for metabolic networks? JO - Rivista di Biologia / Biol Forum VL - 102 ID - Ding2009 ER - TY - JOUR AU - Jonsson, P. F. AU - Cavanna, T. AU - Zicha, D. AU - Bates, P. A. PY - 2006 DA - 2006// TI - Cluster analysis of networks generated through homology: automatic identification of important protein communities involved in cancer metastasis JO - BMC Bioinforma VL - 7 UR - https://doi.org/10.1186/1471-2105-7-2 DO - 10.1186/1471-2105-7-2 ID - Jonsson2006 ER - TY - JOUR AU - Hu, K. AU - Chen, F. PY - 2012 DA - 2012// TI - Identification of significant pathways in gastric cancer based on protein-protein interaction networks and cluster analysis JO - Genet Mol Biol VL - 35 UR - https://doi.org/10.1590/S1415-47572012005000045 DO - 10.1590/S1415-47572012005000045 ID - Hu2012 ER -