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Identifying transcription factor complexes and their roles. Will T, Helms V (2014) Bioinformatics 17(30). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Identifying transcription factor complexes and their roles.
Will T, Helms V (2014) Bioinformatics 17(30).
Cytoscape cited!
Systematic prioritization and integrative analysis of copy number variations in schizophrenia reveal key schizophrenia susceptibility genes. Luo X, Huang L, Han L, Luo Z, Hu F, Tieu R, Gan L (2014) Schizophr Bull 6(40). Cytoscape cited! clusterViz app at the Cytoscape App Store - http://cytoscape-publications.tumblr.com/post...
Systematic prioritization and integrative analysis of copy number variations in schizophrenia reveal key schizophrenia susceptibility genes.
Luo X, Huang L, Han L, Luo Z, Hu F, Tieu R, Gan L (2014) Schizophr Bull 6(40).
Cytoscape cited! 
clusterViz app at the Cytoscape App Store
Clinical interpretation of CNVs with cross-species phenotype data. Köhler S, Schoeneberg U, Czeschik JC, Doelken SC, Hehir-Kwa JY, Ibn-Salem J, Mungall CJ, Smedley D, Haendel MA, Robinson PN (2014) J. Med. Genet. 11(51). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Clinical interpretation of CNVs with cross-species phenotype data.
Köhler S, Schoeneberg U, Czeschik JC, Doelken SC, Hehir-Kwa JY, Ibn-Salem J, Mungall CJ, Smedley D, Haendel MA, Robinson PN (2014) J. Med. Genet. 11(51).
Cytoscape cited!
Interactome analysis of the influenza a virus transcription/replication machinery identifies protein phosphatase 6 as a cellular factor required for efficient virus replication. York A, Hutchinson EC, Fodor E (2014) J. Virol. 22(88). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Interactome analysis of the influenza a virus transcription/replication machinery identifies protein phosphatase 6 as a cellular factor required for efficient virus replication.
York A, Hutchinson EC, Fodor E (2014) J. Virol. 22(88).
 
Cytoscape cited!
Social insect colony as a biological regulatory system: modelling information flow in dominance networks. Nandi AK, Sumana A, Bhattacharya K (2014) J R Soc Interface 101(11). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Social insect colony as a biological regulatory system: modelling information flow in dominance networks.
Nandi AK, Sumana A, Bhattacharya K (2014) J R Soc Interface 101(11).
Cytoscape cited!
KDDN: an open-source Cytoscape app for constructing differential dependency networks with significant rewiring. Tian Y, Zhang B, Hoffman EP, Clarke R, Zhang Z, Shih IM, Xuan J, Herrington DM, Wang Y (2014) Bioinformatics (). KDDN at the Cytoscape App Store - http://cytoscape-publications.tumblr.com/post...
KDDN: an open-source Cytoscape app for constructing differential dependency networks with significant rewiring.
Tian Y, Zhang B, Hoffman EP, Clarke R, Zhang Z, Shih IM, Xuan J, Herrington DM, Wang Y (2014) Bioinformatics ().
KDDN at the Cytoscape App Store
PINBPA: Cytoscape app for network analysis of GWAS data. Wang L, Matsushita T, Madireddy L, Mousavi P, Baranzini SE (2014) Bioinformatics (). Cytoscape cited! PINBPA at the Cytoscape App Store - http://cytoscape-publications.tumblr.com/post...
PINBPA: Cytoscape app for network analysis of GWAS data.
Wang L, Matsushita T, Madireddy L, Mousavi P, Baranzini SE (2014) Bioinformatics ().
 
Cytoscape cited!
 
PINBPA at the Cytoscape App Store
ILLUMINATING MICROBIAL DARK MATTER IN MEROMICTIC SAKINAW LAKE. Gies EA, Konwar KM, Beatty JT, Hallam SJ (2014) Appl. Environ. Microbiol. (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
ILLUMINATING MICROBIAL DARK MATTER IN MEROMICTIC SAKINAW LAKE.
Gies EA, Konwar KM, Beatty JT, Hallam SJ (2014) Appl. Environ. Microbiol. ().
Cytoscape cited!
Signal interactions in the regulation of root nitrate uptake. Ruffel S, Gojon A, Lejay L (2014) J. Exp. Bot. 19(65). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Signal interactions in the regulation of root nitrate uptake.
Ruffel S, Gojon A, Lejay L (2014) J. Exp. Bot. 19(65).
Cytoscape cited!
BioVLAB-MMIA-NGS: MicroRNA-mRNA Integrated Analysis using High Throughput Sequencing Data. Chae H, Rhee S, Nephew KP, Kim S (2014) Bioinformatics (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
BioVLAB-MMIA-NGS: MicroRNA-mRNA Integrated Analysis using High Throughput Sequencing Data.
Chae H, Rhee S, Nephew KP, Kim S (2014) Bioinformatics ().
Cytoscape cited!
Proteomic analysis of arginine methylation sites in human cells reveals dynamic regulation during transcriptional arrest. Sylvestersen KB, Horn H, Jungmichel S, Jensen LJ, Nielsen ML (2014) Mol. Cell Proteomics 8(13). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Proteomic analysis of arginine methylation sites in human cells reveals dynamic regulation during transcriptional arrest.
Sylvestersen KB, Horn H, Jungmichel S, Jensen LJ, Nielsen ML (2014) Mol. Cell Proteomics 8(13).
 
Cytoscape cited!
3,3’-diindolylmethane ameliorates experimental autoimmune encephalomyelitis by promoting cell cycle arrest and apoptosis in activated T cells through microRNA signaling pathways. Rouse M, Rao R, Nagarkatti M, Nagarkatti PS (2014) J. Pharmacol. Exp. Ther. 2(350). ClueGO app at the Cytoscape App Store CluePedia at the Cytoscape App Store - http://cytoscape-publications.tumblr.com/post...
3,3’-diindolylmethane ameliorates experimental autoimmune encephalomyelitis by promoting cell cycle arrest and apoptosis in activated T cells through microRNA signaling pathways.
Rouse M, Rao R, Nagarkatti M, Nagarkatti PS (2014) J. Pharmacol. Exp. Ther. 2(350).
ClueGO app at the Cytoscape App Store 
CluePedia at the Cytoscape App Store
A network perspective on nitrogen metabolism from model to crop plants using integrated ‘omics’ approaches. Fukushima A, Kusano M (2014) J. Exp. Bot. (). BiNGO at the Cytoscape App Store - http://cytoscape-publications.tumblr.com/post...
A network perspective on nitrogen metabolism from model to crop plants using integrated ‘omics’ approaches.
Fukushima A, Kusano M (2014) J. Exp. Bot. ().
BiNGO at the Cytoscape App Store
Alterations in the cerebellar (Phospho)proteome of a cyclic guanosine monophosphate (cGMP)-dependent protein kinase knockout mouse. Corradini E, Vallur R, Raaijmakers LM, Feil S, Feil R, Heck AJ, Scholten A (2014) Mol. Cell Proteomics 8(13). PhosphoSitePlus app at the Cytoscape App Store Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Alterations in the cerebellar (Phospho)proteome of a cyclic guanosine monophosphate (cGMP)-dependent protein kinase knockout mouse.
Corradini E, Vallur R, Raaijmakers LM, Feil S, Feil R, Heck AJ, Scholten A (2014) Mol. Cell Proteomics 8(13).
PhosphoSitePlus app at the Cytoscape App Store 
Cytoscape cited!
Network signatures link hepatic effects of anti-diabetic interventions with systemic disease parameters. Kelder T, Verschuren L, van Ommen B, van Gool AJ, Radonjic M, BMC Syst Biol. 2014 Sep 11;8(1):108. Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Network signatures link hepatic effects of anti-diabetic interventions with systemic disease parameters.
Kelder T, Verschuren L, van Ommen B, van Gool AJ, Radonjic M, BMC Syst Biol. 2014 Sep 11;8(1):108.
 
Cytoscape cited!
The exocyst and regulatory GTPases in urinary exosomes. Chacon-Heszele MF, Choi SY, Zuo X, Baek JI, Ward C, Lipschutz JH (2014) Physiol Rep 8(2). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
The exocyst and regulatory GTPases in urinary exosomes.
Chacon-Heszele MF, Choi SY, Zuo X, Baek JI, Ward C, Lipschutz JH (2014) Physiol Rep 8(2).
Cytoscape cited!
Quantifying the underlying landscape and paths of cancer. Li C, Wang J (2014) J R Soc Interface 100(11). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Quantifying the underlying landscape and paths of cancer.
Li C, Wang J (2014) J R Soc Interface 100(11).
Cytoscape cited!
Gene expression profiles of entorhinal cortex in Alzheimer’s disease. Ding B, Xi Y, Gao M, Li Z, Xu C, Fan S, He W (2014) Am J Alzheimers Dis Other Demen 6(29). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Gene expression profiles of entorhinal cortex in Alzheimer’s disease.
Ding B, Xi Y, Gao M, Li Z, Xu C, Fan S, He W (2014) Am J Alzheimers Dis Other Demen 6(29).
Cytoscape cited!
cddApp: A Cytoscape App for Accessing the NCBI Conserved Domain Database. Morris JH, Wu A, Yamashita RA, Marchler-Bauer A, Ferrin TE (2014) Bioinformatics (). cddApp at the Cytoscape App Store Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
cddApp: A Cytoscape App for Accessing the NCBI Conserved Domain Database.
Morris JH, Wu A, Yamashita RA, Marchler-Bauer A, Ferrin TE (2014) Bioinformatics ().
cddApp at the Cytoscape App Store 
Cytoscape cited!
Extracting patterns of database and software usage from the bioinformatics literature. Duck G, Nenadic G, Brass A, Robertson DL, Stevens R (2014) Bioinformatics 17(30). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Extracting patterns of database and software usage from the bioinformatics literature.
Duck G, Nenadic G, Brass A, Robertson DL, Stevens R (2014) Bioinformatics 17(30).
Cytoscape cited!
Extensive gene remodeling in the viral world: new evidence for nongradual evolution in the mobilome network. Jachiet PA, Colson P, Lopez P, Bapteste E (2014) Genome Biol Evol 9(6). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Extensive gene remodeling in the viral world: new evidence for nongradual evolution in the mobilome network.
Jachiet PA, Colson P, Lopez P, Bapteste E (2014) Genome Biol Evol 9(6).
Cytoscape cited!
Pepper: cytoscape app for protein complex expansion using protein-protein interaction networks. Winterhalter C, Nicolle R, Louis A, To C, Radvanyi F, Elati M (2014) Bioinformatics (). Cytoscape cited! PEPPER at the Cytoscape App Store - http://cytoscape-publications.tumblr.com/post...
Pepper: cytoscape app for protein complex expansion using protein-protein interaction networks.
Winterhalter C, Nicolle R, Louis A, To C, Radvanyi F, Elati M (2014) Bioinformatics ().
 
Cytoscape cited!
 
PEPPER at the Cytoscape App Store
Selective clearance of aberrant tau proteins and rescue of neurotoxicity by transcription factor EB. Polito VA, Li H, Martini-Stoica H, Wang B, Yang L, Xu Y, Swartzlander DB, Palmieri M, di Ronza A, Lee VM, Sardiello M, Ballabio A, Zheng H (2014) EMBO Mol Med 9(6). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Selective clearance of aberrant tau proteins and rescue of neurotoxicity by transcription factor EB.
Polito VA, Li H, Martini-Stoica H, Wang B, Yang L, Xu Y, Swartzlander DB, Palmieri M, di Ronza A, Lee VM, Sardiello M, Ballabio A, Zheng H (2014) EMBO Mol Med 9(6).
Cytoscape cited!
Machine learning-based prediction of drug-drug interactions by integrating drug phenotypic, therapeutic, chemical, and genomic properties. Cheng F, Zhao Z (2014) J Am Med Inform Assoc (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Machine learning-based prediction of drug-drug interactions by integrating drug phenotypic, therapeutic, chemical, and genomic properties.
Cheng F, Zhao Z (2014) J Am Med Inform Assoc ().
Cytoscape cited!
Vitamin C deficiency improves somatic embryo development through distinct gene regulatory networks in Arabidopsis. Becker MG, Chan A, Mao X, Girard IJ, Lee S, Mohamed E, Stasolla C, Belmonte MF (2014) J. Exp. Bot. (). - http://cytoscape-publications.tumblr.com/post...
Vitamin C deficiency improves somatic embryo development through distinct gene regulatory networks in Arabidopsis.
Becker MG, Chan A, Mao X, Girard IJ, Lee S, Mohamed E, Stasolla C, Belmonte MF (2014) J. Exp. Bot. ().
DNA damage triggers SAF-A and RNA biogenesis factors exclusion from chromatin coupled to R-loops removal. Britton S, Dernoncourt E, Delteil C, Froment C, Schiltz O, Salles B, Frit P, Calsou P (2014) Nucleic Acids Res. 14(42). - http://cytoscape-publications.tumblr.com/post...
DNA damage triggers SAF-A and RNA biogenesis factors exclusion from chromatin coupled to R-loops removal.
Britton S, Dernoncourt E, Delteil C, Froment C, Schiltz O, Salles B, Frit P, Calsou P (2014) Nucleic Acids Res. 14(42).
The palmitoyl acyltransferase HIP14 shares a high proportion of interactors with huntingtin: implications for a role in the pathogenesis of Huntington’s disease. Butland SL, Sanders SS, Schmidt ME, Riechers SP, Lin DT, Martin DD, Vaid K, Graham RK, Singaraja RR, Wanker EE, Conibear E, Hayden MR (2014) Hum. Mol. Genet. 15(23). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
The palmitoyl acyltransferase HIP14 shares a high proportion of interactors with huntingtin: implications for a role in the pathogenesis of Huntington’s disease.
Butland SL, Sanders SS, Schmidt ME, Riechers SP, Lin DT, Martin DD, Vaid K, Graham RK, Singaraja RR, Wanker EE, Conibear E, Hayden MR (2014) Hum. Mol. Genet. 15(23).
 
Cytoscape cited!
Influence of DNA extraction methods, 16S rRNA targeted hypervariable regions and sample origins on the microbial diversity detected by 454 pyrosequencing in marine chemosynthetic ecosystems. Cruaud P, Vigneron A, Lucchetti-Miganeh C, Ciron PE, Godfroy A, Cambon-Bonavita MA (2014) Appl. Environ. Microbiol. (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Influence of DNA extraction methods, 16S rRNA targeted hypervariable regions and sample origins on the microbial diversity detected by 454 pyrosequencing in marine chemosynthetic ecosystems.
Cruaud P, Vigneron A, Lucchetti-Miganeh C, Ciron PE, Godfroy A, Cambon-Bonavita MA (2014) Appl. Environ. Microbiol. ().
Cytoscape cited!
Cellulolytic Streptomyces strains associated with herbivorous insects share a phylogenetically-linked capacity for the degradation of lignocellulose. Book AJ, Lewin GR, McDonald BR, Takasuka TE, Doering DT, Adams AS, Blodgett JA, Clardy J, Raffa KF, Fox BG, Currie CR (2014) Appl. Environ. Microbiol. (). Cytoscape cited! - http://cytoscape-publications.tumblr.com/post...
Cellulolytic Streptomyces strains associated with herbivorous insects share a phylogenetically-linked capacity for the degradation of lignocellulose.
Book AJ, Lewin GR, McDonald BR, Takasuka TE, Doering DT, Adams AS, Blodgett JA, Clardy J, Raffa KF, Fox BG, Currie CR (2014) Appl. Environ. Microbiol. ().
Cytoscape cited!
Early Targets of miR-34a in Neuroblastoma. De Antonellis P, Carotenuto M, Vandenbussche J, De Vita G, Ferrucci V, Medaglia C, Boffa I, Galiero A, Di Somma S, Magliulo D, Aiese N, Alonzi A, Spano D, Liguori L, Chiarolla C, Verrico A, Schulte JH, Mestdagh P, Vandesompele J, Gevaert K, Zollo M (2014) Mol. Cell Proteomics 8(13). Cytoscape cited! MiMI... - http://cytoscape-publications.tumblr.com/post...
Early Targets of miR-34a in Neuroblastoma.
De Antonellis P, Carotenuto M, Vandenbussche J, De Vita G, Ferrucci V, Medaglia C, Boffa I, Galiero A, Di Somma S, Magliulo D, Aiese N, Alonzi A, Spano D, Liguori L, Chiarolla C, Verrico A, Schulte JH, Mestdagh P, Vandesompele J, Gevaert K, Zollo M (2014) Mol. Cell Proteomics 8(13).
 
Cytoscape cited!
 
MiMI App at the Cytoscape App Store
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