1565 related articles for article (PubMed ID: 17947979)
1. Integration of biological networks and gene expression data using Cytoscape.
Cline MS; Smoot M; Cerami E; Kuchinsky A; Landys N; Workman C; Christmas R; Avila-Campilo I; Creech M; Gross B; Hanspers K; Isserlin R; Kelley R; Killcoyne S; Lotia S; Maere S; Morris J; Ono K; Pavlovic V; Pico AR; Vailaya A; Wang PL; Adler A; Conklin BR; Hood L; Kuiper M; Sander C; Schmulevich I; Schwikowski B; Warner GJ; Ideker T; Bader GD
Nat Protoc; 2007; 2(10):2366-82. PubMed ID: 17947979
[TBL] [Abstract][Full Text] [Related]
2. Exploring biological networks with Cytoscape software.
Yeung N; Cline MS; Kuchinsky A; Smoot ME; Bader GD
Curr Protoc Bioinformatics; 2008 Sep; Chapter 8():8.13.1-8.13.20. PubMed ID: 18819078
[TBL] [Abstract][Full Text] [Related]
3. Integration of genomic information with biological networks using Cytoscape.
Bauer-Mehren A
Methods Mol Biol; 2013; 1021():37-61. PubMed ID: 23715979
[TBL] [Abstract][Full Text] [Related]
4. Displaying chemical information on a biological network using Cytoscape.
Wallace IM; Bader GD; Giaever G; Nislow C
Methods Mol Biol; 2011; 781():363-76. PubMed ID: 21877291
[TBL] [Abstract][Full Text] [Related]
5. OmicsViz: Cytoscape plug-in for visualizing omics data across species.
Xia T; Dickerson JA
Bioinformatics; 2008 Nov; 24(21):2557-8. PubMed ID: 18779234
[TBL] [Abstract][Full Text] [Related]
6. TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks.
Lepoivre C; Bergon A; Lopez F; Perumal NB; Nguyen C; Imbert J; Puthier D
BMC Bioinformatics; 2012 Jan; 13():19. PubMed ID: 22292669
[TBL] [Abstract][Full Text] [Related]
7. A travel guide to Cytoscape plugins.
Saito R; Smoot ME; Ono K; Ruscheinski J; Wang PL; Lotia S; Pico AR; Bader GD; Ideker T
Nat Methods; 2012 Nov; 9(11):1069-76. PubMed ID: 23132118
[TBL] [Abstract][Full Text] [Related]
8. Cytoscape StringApp: Network Analysis and Visualization of Proteomics Data.
Doncheva NT; Morris JH; Gorodkin J; Jensen LJ
J Proteome Res; 2019 Feb; 18(2):623-632. PubMed ID: 30450911
[TBL] [Abstract][Full Text] [Related]
9. Development and use of a Cytoscape app for GRNCOP2.
Díaz-Montaña JJ; Díaz-Díaz N; Barranco CD; Ponzoni I
Comput Methods Programs Biomed; 2019 Aug; 177():211-218. PubMed ID: 31319950
[TBL] [Abstract][Full Text] [Related]
10. Cytoscape: a software environment for integrated models of biomolecular interaction networks.
Shannon P; Markiel A; Ozier O; Baliga NS; Wang JT; Ramage D; Amin N; Schwikowski B; Ideker T
Genome Res; 2003 Nov; 13(11):2498-504. PubMed ID: 14597658
[TBL] [Abstract][Full Text] [Related]
11. Identifying Gene Interaction Networks.
Wiredja D; Bebek G
Methods Mol Biol; 2017; 1666():539-556. PubMed ID: 28980264
[TBL] [Abstract][Full Text] [Related]
12. Genoscape: a Cytoscape plug-in to automate the retrieval and integration of gene expression data and molecular networks.
Clément-Ziza M; Malabat C; Weber C; Moszer I; Aittokallio T; Letondal C; Rousseau S
Bioinformatics; 2009 Oct; 25(19):2617-8. PubMed ID: 19654116
[TBL] [Abstract][Full Text] [Related]
13. Co-expression Networks in Predicting Transcriptional Gene Regulation.
AbuQamar SF; El-Tarabily KA; Sham A
Methods Mol Biol; 2021; 2328():1-11. PubMed ID: 34251616
[TBL] [Abstract][Full Text] [Related]
14. Exploratory Analysis of Biological Networks through Visualization, Clustering, and Functional Annotation in Cytoscape.
Baryshnikova A
Cold Spring Harb Protoc; 2016 Jun; 2016(6):. PubMed ID: 26988373
[TBL] [Abstract][Full Text] [Related]
15. Construction and Analysis of miRNA Regulatory Networks.
Mensi A; Bonnici V; Caligola S; Giugno R
Methods Mol Biol; 2019; 1970():121-167. PubMed ID: 30963492
[TBL] [Abstract][Full Text] [Related]
16. Bioinformatics analysis of the interactions among lncRNA, miRNA and mRNA expression, genetic mutations and epigenetic modifications in hepatocellular carcinoma.
Lin C; Yuan G; Hu Z; Zeng Y; Qiu X; Yu H; He S
Mol Med Rep; 2019 Feb; 19(2):1356-1364. PubMed ID: 30535497
[TBL] [Abstract][Full Text] [Related]
17. The Pathway Coexpression Network: Revealing pathway relationships.
Pita-Juárez Y; Altschuler G; Kariotis S; Wei W; Koler K; Green C; Tanzi RE; Hide W
PLoS Comput Biol; 2018 Mar; 14(3):e1006042. PubMed ID: 29554099
[TBL] [Abstract][Full Text] [Related]
18. Identification of Potentially Functional CircRNA-miRNA-mRNA Regulatory Network in Gastric Carcinoma using Bioinformatics Analysis.
Yang G; Zhang Y; Yang J
Med Sci Monit; 2019 Nov; 25():8777-8796. PubMed ID: 31747387
[TBL] [Abstract][Full Text] [Related]
19. DeDaL: Cytoscape 3 app for producing and morphing data-driven and structure-driven network layouts.
Czerwinska U; Calzone L; Barillot E; Zinovyev A
BMC Syst Biol; 2015 Aug; 9():46. PubMed ID: 26271256
[TBL] [Abstract][Full Text] [Related]
20. Simultaneous Integration of Multi-omics Data Improves the Identification of Cancer Driver Modules.
Silverbush D; Cristea S; Yanovich-Arad G; Geiger T; Beerenwinkel N; Sharan R
Cell Syst; 2019 May; 8(5):456-466.e5. PubMed ID: 31103572
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]