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Cytoscape

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A Second-generation Protein-Protein Interaction Network of Helicobacter pylori. Häuser R, Ceol A, Rajagopala SV, Mosca R, Siszler G, Wermke N, Sikorski P, Schwarz F, Schick M, Wuchty S, Aloy P, Uetz P (2014) Mol. Cell Proteomics (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
A Second-generation Protein-Protein Interaction Network of Helicobacter pylori.
Häuser R, Ceol A, Rajagopala SV, Mosca R, Siszler G, Wermke N, Sikorski P, Schwarz F, Schick M, Wuchty S, Aloy P, Uetz P (2014) Mol. Cell Proteomics ().
Cytoscape cited!
Phenol Soluble Modulin Variants of Community-Associated Methicillin-Resistant Staphylococcus aureus Captured Using Mass Spectrometry-Based Molecular Networking. Gonzalez DJ, Vuong L, Gonzalez IS, Keller N, McGrosso D, Hwang HK, Hung J, Zinkernagel AS, Dixon JE, Dorrestein PC, Nizet V (2014) Mol. Cell Proteomics (). - http://cytoscape-publications.tumblr.com/post...
Phenol Soluble Modulin Variants of Community-Associated Methicillin-Resistant Staphylococcus aureus Captured Using Mass Spectrometry-Based Molecular Networking.
Gonzalez DJ, Vuong L, Gonzalez IS, Keller N, McGrosso D, Hwang HK, Hung J, Zinkernagel AS, Dixon JE, Dorrestein PC, Nizet V (2014) Mol. Cell Proteomics ().
Modeling the Transcriptional Regulatory Network That Controls the Early Hypoxic Response in Candida albicans. Sellam A, van Het Hoog M, Tebbji F, Beaurepaire C, Whiteway M, Nantel A (2014) Eukaryotic Cell 5(13). EnrichmentMap at the Cytoscape App Store Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Modeling the Transcriptional Regulatory Network That Controls the Early Hypoxic Response in Candida albicans.
Sellam A, van Het Hoog M, Tebbji F, Beaurepaire C, Whiteway M, Nantel A (2014) Eukaryotic Cell 5(13).
EnrichmentMap at the Cytoscape App Store
 
Cytoscape cited!
MetDisease—connecting metabolites to diseases via literature. Duren W, Weymouth T, Hull T, Omenn GS, Athey B, Burant C, Karnovsky A (2014) Bioinformatics (). MetDisease at the Cytoscape App Store Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
MetDisease—connecting metabolites to diseases via literature.
Duren W, Weymouth T, Hull T, Omenn GS, Athey B, Burant C, Karnovsky A (2014) Bioinformatics ().
MetDisease at the Cytoscape App Store
Cytoscape cited!
Evolution of bacterial protein-tyrosine kinases and their relaxed specificity toward substrates. Shi L, Ji B, Kolar-Znika L, Boskovic A, Jadeau F, Combet C, Grangeasse C, Franjevic D, Talla E, Mijakovic I (2014) Genome Biol Evol 4(6). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Evolution of bacterial protein-tyrosine kinases and their relaxed specificity toward substrates.
Shi L, Ji B, Kolar-Znika L, Boskovic A, Jadeau F, Combet C, Grangeasse C, Franjevic D, Talla E, Mijakovic I (2014) Genome Biol Evol 4(6).
Cytoscape cited!
A systems biology approach identifies effective tumor-stroma common targets for oral squamous cell carcinoma. Meng W, Wu Y, He X, Liu C, Gao Q, Ge L, Wu L, Liu Y, Guo Y, Li X, Liu Y, Chen S, Kong X, Liang Z, Zhou H (2014) Cancer Res. 8(74). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
A systems biology approach identifies effective tumor-stroma common targets for oral squamous cell carcinoma.
Meng W, Wu Y, He X, Liu C, Gao Q, Ge L, Wu L, Liu Y, Guo Y, Li X, Liu Y, Chen S, Kong X, Liang Z, Zhou H (2014) Cancer Res. 8(74).
Cytoscape cited!
Metabolic characterization of hepatocellular carcinoma using nontargeted tissue metabolomics. Huang Q, Tan Y, Yin P, Ye G, Gao P, Lu X, Wang H, Xu G (2013) Cancer Res. 16(73). - http://cytoscape-publications.tumblr.com/post...
Metabolic characterization of hepatocellular carcinoma using nontargeted tissue metabolomics.
Huang Q, Tan Y, Yin P, Ye G, Gao P, Lu X, Wang H, Xu G (2013) Cancer Res. 16(73).
SIRT1 is a Highly Networked Protein That Mediates the Adaptation to Chronic Physiological Stress. McBurney MW, Clark-Knowles KV, Caron AZ, Gray DA (2013) Genes Cancer 3-4(4). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
SIRT1 is a Highly Networked Protein That Mediates the Adaptation to Chronic Physiological Stress.
McBurney MW, Clark-Knowles KV, Caron AZ, Gray DA (2013) Genes Cancer 3-4(4).
Cytoscape cited!
The gene vitellogenin affects microRNA regulation in honey bee (Apis mellifera) fat body and brain. Nunes FM, Ihle KE, Mutti NS, Simões ZL, Amdam GV (2013) J. Exp. Biol. Pt 19(216). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
The gene vitellogenin affects microRNA regulation in honey bee (Apis mellifera) fat body and brain.
Nunes FM, Ihle KE, Mutti NS, Simões ZL, Amdam GV (2013) J. Exp. Biol. Pt 19(216).
 
Cytoscape cited!
Shrinking the FadE Proteome of Mycobacterium tuberculosis: Insights into Cholesterol Metabolism through Identification of an α2β2 Heterotetrameric Acyl Coenzyme A Dehydrogenase Family. Wipperman MF, Yang M, Thomas ST, Sampson NS (2013) J. Bacteriol. 19(195). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Shrinking the FadE Proteome of Mycobacterium tuberculosis: Insights into Cholesterol Metabolism through Identification of an α2β2 Heterotetrameric Acyl Coenzyme A Dehydrogenase Family.
Wipperman MF, Yang M, Thomas ST, Sampson NS (2013) J. Bacteriol. 19(195).
 
Cytoscape cited!
Comparative genomics boosts target prediction for bacterial small RNAs. Wright PR, Richter AS, Papenfort K, Mann M, Vogel J, Hess WR, Backofen R, Georg J (2013) Proc. Natl. Acad. Sci. U.S.A. 37(110). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Comparative genomics boosts target prediction for bacterial small RNAs.
Wright PR, Richter AS, Papenfort K, Mann M, Vogel J, Hess WR, Backofen R, Georg J (2013) Proc. Natl. Acad. Sci. U.S.A. 37(110).
Cytoscape cited!
ER exit sites are physical and functional core autophagosome biogenesis components. Graef M, Friedman JR, Graham C, Babu M, Nunnari J (2013) Mol. Biol. Cell 18(24). - http://cytoscape-publications.tumblr.com/post...
ER exit sites are physical and functional core autophagosome biogenesis components.
Graef M, Friedman JR, Graham C, Babu M, Nunnari J (2013) Mol. Biol. Cell 18(24).
Improving Social Connection Through a Communities of Practice–Inspired Cognitive Work Analysis Approach Adam Euerby and Catherine M. Burns, Human Factors: The Journal of the Human Factors and Ergonomics Society,12 September 2013. - http://cytoscape-publications.tumblr.com/post...
Improving Social Connection Through a Communities of Practice–Inspired Cognitive Work Analysis Approach
 
Adam Euerby and Catherine M. Burns, Human Factors: The Journal of the Human Factors and Ergonomics Society,12 September 2013.
Rac1 is deactivated at integrin activation sites through an IQGAP1-filamin-A-RacGAP1 pathway. Jacquemet G, Morgan MR, Byron A, Humphries JD, Choi CK, Chen CS, Caswell PT, Humphries MJ (2013) J. Cell. Sci. Pt 18(126). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Rac1 is deactivated at integrin activation sites through an IQGAP1-filamin-A-RacGAP1 pathway.
Jacquemet G, Morgan MR, Byron A, Humphries JD, Choi CK, Chen CS, Caswell PT, Humphries MJ (2013) J. Cell. Sci. Pt 18(126).
 
Cytoscape cited!
Safeguards for Cell Cooperation in Mouse Embryogenesis Shown by Genome-Wide Cheater Screen. Dejosez M, Ura H, Brandt VL, Zwaka TP (2013) Science (). - http://cytoscape-publications.tumblr.com/post...
Safeguards for Cell Cooperation in Mouse Embryogenesis Shown by Genome-Wide Cheater Screen.
Dejosez M, Ura H, Brandt VL, Zwaka TP (2013) Science ().
Mitochondrial genome rearrangements in Glomus species triggered by homologous recombination between distinct mtDNA haplotypes. Beaudet D, Terrat Y, Halary S, de la Providencia IE, Hijri M (2013) Genome Biol Evol (). - http://cytoscape-publications.tumblr.com/post...
Mitochondrial genome rearrangements in Glomus species triggered by homologous recombination between distinct mtDNA haplotypes.
Beaudet D, Terrat Y, Halary S, de la Providencia IE, Hijri M (2013) Genome Biol Evol ().
Network Analysis Identifies an HSP90-Central Hub Susceptible in Ovarian Cancer. Liu H, Xiao F, Serebriiskii IG, O’Brien SW, Maglaty MA, Astsaturov I, Litwin S, Martin LP, Proia DA, Golemis EA, Connolly DC (2013) Clin. Cancer Res. (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Network Analysis Identifies an HSP90-Central Hub Susceptible in Ovarian Cancer.
Liu H, Xiao F, Serebriiskii IG, O’Brien SW, Maglaty MA, Astsaturov I, Litwin S, Martin LP, Proia DA, Golemis EA, Connolly DC (2013) Clin. Cancer Res. ().
 
Cytoscape cited!
RCytoscape: tools for exploratory network analysis. Shannon PT, Grimes M, Kutlu B, Bot JJ, Galas DJ (2013) BMC Bioinformatics 1(14). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
RCytoscape: tools for exploratory network analysis.
Shannon PT, Grimes M, Kutlu B, Bot JJ, Galas DJ (2013) BMC Bioinformatics 1(14).
 
Cytoscape cited!
Intrinsic Disorder in PTEN and its Interactome Confers Structural Plasticity and Functional Versatility. Malaney P, Pathak RR, Xue B, Uversky VN, Davé V (2013) Sci Rep (3). - http://cytoscape-publications.tumblr.com/post...
Intrinsic Disorder in PTEN and its Interactome Confers Structural Plasticity and Functional Versatility.
Malaney P, Pathak RR, Xue B, Uversky VN, Davé V (2013) Sci Rep (3).
Fungal genes in context: genome architecture reflects regulatory complexity and function. Noble LM, Andrianopoulos A (2013) Genome Biol Evol 7(5). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Fungal genes in context: genome architecture reflects regulatory complexity and function.
Noble LM, Andrianopoulos A (2013) Genome Biol Evol 7(5).
Cytoscape cited!
Systems approaches map regulatory networks downstream of the auxin receptor AFB3 in the nitrate response of Arabidopsis thaliana roots. Vidal EA, Moyano TC, Riveras E, Contreras-López O, Gutiérrez RA (2013) Proc. Natl. Acad. Sci. U.S.A. 31(110). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Systems approaches map regulatory networks downstream of the auxin receptor AFB3 in the nitrate response of Arabidopsis thaliana roots.
Vidal EA, Moyano TC, Riveras E, Contreras-López O, Gutiérrez RA (2013) Proc. Natl. Acad. Sci. U.S.A. 31(110).
Cytoscape cited!
Tracking individuals shows spatial fidelity is a key regulator of ant social organization. Mersch DP, Crespi A, Keller L (2013) Science 6136(340). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Tracking individuals shows spatial fidelity is a key regulator of ant social organization.
Mersch DP, Crespi A, Keller L (2013) Science 6136(340).
 
Cytoscape cited!
Possible Links Between Stress Defense and the Tricarboxylic Acid (TCA) Cycle in Francisella Pathogenesis. Dieppedale J, Gesbert G, Ramond E, Chhuon C, Dubail I, Dupuis M, Guerrera IC, Charbit A (2013) Mol. Cell Proteomics 8(12). - http://cytoscape-publications.tumblr.com/post...
Possible Links Between Stress Defense and the Tricarboxylic Acid (TCA) Cycle in Francisella Pathogenesis.
Dieppedale J, Gesbert G, Ramond E, Chhuon C, Dubail I, Dupuis M, Guerrera IC, Charbit A (2013) Mol. Cell Proteomics 8(12).
Colitis-accelerated colorectal cancer and metabolic dysregulation in a mouse model. Gao Y, Li X, Yang M, Zhao Q, Liu X, Wang G, Lu X, Wu Q, Wu J, Yang Y, Yang Y, Zhang Y (2013) Carcinogenesis 8(34). - http://cytoscape-publications.tumblr.com/post...
Colitis-accelerated colorectal cancer and metabolic dysregulation in a mouse model.
Gao Y, Li X, Yang M, Zhao Q, Liu X, Wang G, Lu X, Wu Q, Wu J, Yang Y, Yang Y, Zhang Y (2013) Carcinogenesis 8(34).
Context-dependent hierarchies in pigeons. Nagy M, Vásárhelyi G, Pettit B, Roberts-Mariani I, Vicsek T, Biro D (2013) Proc. Natl. Acad. Sci. U.S.A. 32(110). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Context-dependent hierarchies in pigeons.
Nagy M, Vásárhelyi G, Pettit B, Roberts-Mariani I, Vicsek T, Biro D (2013) Proc. Natl. Acad. Sci. U.S.A. 32(110).
Cytoscape cited!
Exploring the role of human miRNAs in virus-host interactions using systematic overlap analysis. Li Z, Cui X, Li F, Li P, Ni M, Wang S, Bo X (2013) Bioinformatics (). - http://cytoscape-publications.tumblr.com/post...
Exploring the role of human miRNAs in virus-host interactions using systematic overlap analysis.
Li Z, Cui X, Li F, Li P, Ni M, Wang S, Bo X (2013) Bioinformatics ().
Systems biology of Ewing sarcoma: a network model of EWS-FLI1 effect on proliferation and apoptosis. Stoll G, Surdez D, Tirode F, Laud K, Barillot E, Zinovyev A, Delattre O (2013) Nucleic Acids Res. (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Systems biology of Ewing sarcoma: a network model of EWS-FLI1 effect on proliferation and apoptosis.
Stoll G, Surdez D, Tirode F, Laud K, Barillot E, Zinovyev A, Delattre O (2013) Nucleic Acids Res. ().
Cytoscape cited!
SPNConverter: a new link between static and dynamic complex network analysis. Dent JE, Yang X, Nardini C (2013) Bioinformatics (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
SPNConverter: a new link between static and dynamic complex network analysis.
Dent JE, Yang X, Nardini C (2013) Bioinformatics ().
Cytoscape cited!
The Chlorite Dismutase (HemQ) from Staphylococcus aureus Has a Redox-sensitive Heme and Is Associated with the Small Colony Variant Phenotype. Mayfield JA, Hammer ND, Kurker RC, Chen TK, Ojha S, Skaar EP, Dubois JL (2013) J. Biol. Chem. 32(288). - http://cytoscape-publications.tumblr.com/post...
The Chlorite Dismutase (HemQ) from Staphylococcus aureus Has a Redox-sensitive Heme and Is Associated with the Small Colony Variant Phenotype.
Mayfield JA, Hammer ND, Kurker RC, Chen TK, Ojha S, Skaar EP, Dubois JL (2013) J. Biol. Chem. 32(288).
T2D@ZJU: a knowledgebase integrating heterogeneous connections associated with type 2 diabetes mellitus. Yang et al, Database (Oxford). 2013 Jul 11;2013(0):bat052. Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
T2D@ZJU: a knowledgebase integrating heterogeneous connections associated with type 2 diabetes mellitus.
Yang et al, Database (Oxford). 2013 Jul 11;2013(0):bat052.
 
Cytoscape cited!
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