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Related Citations for PubMed (Select 24535485)


Geometric de-noising of protein-protein interaction networks.

Kuchaiev O, Rasajski M, Higham DJ, Przulj N.

PLoS Comput Biol. 2009 Aug;5(8):e1000454. doi: 10.1371/journal.pcbi.1000454. Epub 2009 Aug 7.


GraphCrunch 2: Software tool for network modeling, alignment and clustering.

Kuchaiev O, Stevanović A, Hayes W, Pržulj N.

BMC Bioinformatics. 2011 Jan 19;12:24. doi: 10.1186/1471-2105-12-24.


IP-FCM measures physiologic protein-protein interactions modulated by signal transduction and small-molecule drug inhibition.

Smith SE, Bida AT, Davis TR, Sicotte H, Patterson SE, Gil D, Schrum AG.

PLoS One. 2012;7(9):e45722. doi: 10.1371/journal.pone.0045722. Epub 2012 Sep 21.


The evolutionary dynamics of protein-protein interaction networks inferred from the reconstruction of ancient networks.

Jin Y, Turaev D, Weinmaier T, Rattei T, Makse HA.

PLoS One. 2013;8(3):e58134. doi: 10.1371/journal.pone.0058134. Epub 2013 Mar 20.


Global protein-protein interaction network in the human pathogen Mycobacterium tuberculosis H37Rv.

Wang Y, Cui T, Zhang C, Yang M, Huang Y, Li W, Zhang L, Gao C, He Y, Li Y, Huang F, Zeng J, Huang C, Yang Q, Tian Y, Zhao C, Chen H, Zhang H, He ZG.

J Proteome Res. 2010 Dec 3;9(12):6665-77. doi: 10.1021/pr100808n. Epub 2010 Nov 10.


MCL-CAw: a refinement of MCL for detecting yeast complexes from weighted PPI networks by incorporating core-attachment structure.

Srihari S, Ning K, Leong HW.

BMC Bioinformatics. 2010 Oct 12;11:504. doi: 10.1186/1471-2105-11-504.


Simulated evolution of signal transduction networks.

Mobashir M, Schraven B, Beyer T.

PLoS One. 2012;7(12):e50905. doi: 10.1371/journal.pone.0050905. Epub 2012 Dec 12.


Comparative analysis of protein interaction networks reveals that conserved pathways are susceptible to HIV-1 interception.

Qian X, Yoon BJ.

BMC Bioinformatics. 2011 Feb 15;12 Suppl 1:S19. doi: 10.1186/1471-2105-12-S1-S19.


Fitting a geometric graph to a protein-protein interaction network.

Higham DJ, Rasajski M, Przulj N.

Bioinformatics. 2008 Apr 15;24(8):1093-9. doi: 10.1093/bioinformatics/btn079. Epub 2008 Mar 14.


Dominating biological networks.

Milenković T, Memišević V, Bonato A, Pržulj N.

PLoS One. 2011;6(8):e23016. doi: 10.1371/journal.pone.0023016. Epub 2011 Aug 26.


Functional topology in a network of protein interactions.

Przulj N, Wigle DA, Jurisica I.

Bioinformatics. 2004 Feb 12;20(3):340-8.


How threshold behaviour affects the use of subgraphs for network comparison.

Rito T, Wang Z, Deane CM, Reinert G.

Bioinformatics. 2010 Sep 15;26(18):i611-7. doi: 10.1093/bioinformatics/btq386.


Signal transduction networks: topology, response and biochemical processes.

Soyer OS, Salathé M, Bonhoeffer S.

J Theor Biol. 2006 Jan 21;238(2):416-25. Epub 2005 Jul 20.


Discovering functional interaction patterns in protein-protein interaction networks.

Turanalp ME, Can T.

BMC Bioinformatics. 2008 Jun 11;9:276. doi: 10.1186/1471-2105-9-276.


A comparison of the functional modules identified from time course and static PPI network data.

Tang X, Wang J, Liu B, Li M, Chen G, Pan Y.

BMC Bioinformatics. 2011 Aug 15;12:339. doi: 10.1186/1471-2105-12-339.


Dynamic cross-talk analysis among TNF-R, TLR-4 and IL-1R signalings in TNFalpha-induced inflammatory responses.

Yang SK, Wang YC, Chao CC, Chuang YJ, Lan CY, Chen BS.

BMC Med Genomics. 2010 May 24;3:19. doi: 10.1186/1755-8794-3-19.


Modeling specificity in the yeast MAPK signaling networks.

Zou X, Peng T, Pan Z.

J Theor Biol. 2008 Jan 7;250(1):139-55. Epub 2007 Sep 25.

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