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Cytoscape 2.8: new features for data integration and network visualization

https://doi.org/10.1093/bioinformatics/btq675
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1038/nprot.2007.324openalex-snapshot
Integration of biological networks and gene expression data using Cytoscape
inferredcites →https://doi.org/10.1073/pnas.0606914104openalex-snapshot
Transcriptional regulation of protein complexes within and across species
inferredcites →https://doi.org/10.1073/pnas.0806746106openalex-snapshot
Model of genetic variation in human social networks
inferredcites →https://doi.org/10.1101/gr.1239303openalex-snapshot
Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Proteomic Analysis of the Notch Interactome
inferred← citeshttps://doi.org/10.1007/978-1-4939-1311-4_29openalex-snapshot
Omics Approaches to Macrophage Biology
inferred← citeshttps://doi.org/10.1007/978-1-4939-2398-4_11openalex-snapshot
A Proposed Essential Gene Discovery Pipeline: A Campylobacter jejuni Case Study
inferred← citeshttps://doi.org/10.1007/978-1-4939-2425-7_3openalex-snapshot
Protein-Protein Interaction Databases
inferred← citeshttps://doi.org/10.1007/978-1-4939-2627-5_25openalex-snapshot
AlzPathway, an Updated Map of Curated Signaling Pathways: Towards Deciphering Alzheimer’s Disease Pathogenesis
inferred← citeshttps://doi.org/10.1007/978-1-4939-2627-5_26openalex-snapshot
A Computational Network Biology Approach to Uncover Novel Genes Related to Alzheimer’s Disease
inferred← citeshttps://doi.org/10.1007/978-1-4939-2627-5_27openalex-snapshot
Network Approaches to the Understanding of Alzheimer’s Disease: From Model Organisms to Humans
inferred← citeshttps://doi.org/10.1007/978-1-4939-2627-5_30openalex-snapshot
The SDREM Method for Reconstructing Signaling and Regulatory Response Networks: Applications for Studying Disease Progression
inferred← citeshttps://doi.org/10.1007/978-1-4939-2627-5_33openalex-snapshot
A Practical Guide for Exploring Opportunities of Repurposing Drugs for CNS Diseases in Systems Biology
inferred← citeshttps://doi.org/10.1007/978-1-4939-2778-4_11openalex-snapshot
Analysis of Proteomic Data for Toxicological Applications
inferred← citeshttps://doi.org/10.1007/978-1-4939-2778-4_15openalex-snapshot
Computational Data Integration in Toxicogenomics
inferred← citeshttps://doi.org/10.1007/978-1-4939-3572-7_3openalex-snapshot
The MIntAct Project and Molecular Interaction Databases
inferred← citeshttps://doi.org/10.1007/978-1-4939-3743-1openalex-snapshot
The Gene Ontology Handbook
inferred← citeshttps://doi.org/10.1007/978-1-4939-3743-1_15openalex-snapshot
Visualizing GO Annotations
inferred← citeshttps://doi.org/10.1007/978-1-4939-3759-2_23openalex-snapshot
Bioinformatics Tools for Exploring the SUMO Gene Network
inferred← citeshttps://doi.org/10.1007/978-1-4939-6625-7_6openalex-snapshot
Systems Biology Approach in Hypertension Research
inferred← citeshttps://doi.org/10.1007/978-1-4939-6634-9_2openalex-snapshot
Mining Bacterial Genomes for Secondary Metabolite Gene Clusters
inferred← citeshttps://doi.org/10.1007/978-1-4939-6783-4_6openalex-snapshot
Bioinformatics Analysis of Protein Phosphorylation in Plant Systems Biology Using P3DB
inferred← citeshttps://doi.org/10.1007/978-1-4939-7125-1_16openalex-snapshot
Integration of Genome-Wide TF Binding and Gene Expression Data to Characterize Gene Regulatory Networks in Plant Development
inferred← citeshttps://doi.org/10.1007/978-1-4939-7274-6_27openalex-snapshot
Identifying Gene Interaction Networks
inferred← citeshttps://doi.org/10.1007/978-1-4939-7278-4_16openalex-snapshot
Protocol for Coexpression Network Construction and Stress-Responsive Expression Analysis in Brachypodium
inferred← citeshttps://doi.org/10.1007/978-1-4939-7493-1_2openalex-snapshot
Discovering Altered Regulation and Signaling Through Network-based Integration of Transcriptomic, Epigenomic, and Proteomic Tumor Data
inferred← citeshttps://doi.org/10.1007/978-1-4939-8633-0_13openalex-snapshot
Functional Genomics and Seed Development in Medicago truncatula: An Overview
inferred← citeshttps://doi.org/10.1007/978-1-4939-9045-0_12openalex-snapshot
Identification of Novel lincRNA and Co-Expression Network Analysis Using RNA-Sequencing Data in Plants
inferred← citeshttps://doi.org/10.1007/978-1-59745-290-8_11openalex-snapshot
Systems Biology
inferred← citeshttps://doi.org/10.1007/978-1-61779-555-8_26openalex-snapshot
Identifying Gene Interaction Networks
inferred← citeshttps://doi.org/10.1007/978-1-62703-299-5_2openalex-snapshot
Automated Genome Annotation and Metabolic Model Reconstruction in the SEED and Model SEED
inferred← citeshttps://doi.org/10.1007/978-1-62703-450-0_4openalex-snapshot
Visualization and Analysis of Biological Networks
inferred← citeshttps://doi.org/10.1007/978-1-62703-450-0_6openalex-snapshot
From a Biological Hypothesis to the Construction of a Mathematical Model
inferred← citeshttps://doi.org/10.1007/978-1-62703-691-7_22openalex-snapshot
Navigating the Global Protein–Protein Interaction Landscape Using iRefWeb
inferred← citeshttps://doi.org/10.1007/978-1-62703-721-1_11openalex-snapshot
Integrating In Silico Resources to Map a Signaling Network
inferred← citeshttps://doi.org/10.1007/978-3-030-00374-6_33openalex-snapshot
GraphDL: An Ontology for Linked Data Visualization
inferred← citeshttps://doi.org/10.1007/978-3-030-06016-9_3openalex-snapshot
Construction and Visualization of Dynamic Biological Networks: Benchmarking the Neo4J Graph Database
inferred← citeshttps://doi.org/10.1007/978-3-030-15950-4_7openalex-snapshot
Proteomics and Non-proteomics Approaches to Study Stable and Transient Protein-Protein Interactions
inferred← citeshttps://doi.org/10.1007/978-3-030-22583-4_2openalex-snapshot
Modeling of Molecular Networks
inferred← citeshttps://doi.org/10.1007/978-3-030-31372-2_10openalex-snapshot
Language Comparison via Network Topology
inferred← citeshttps://doi.org/10.1007/978-3-031-21175-1_2openalex-snapshot
Scientific Workflow Interactions: An Application to Cancer Gene Identification
inferred← citeshttps://doi.org/10.1007/978-3-031-35998-9_15openalex-snapshot
Understanding the Relationship Between Behaviours Using Semantic Technologies
inferred← citeshttps://doi.org/10.1007/978-3-031-64636-2_9openalex-snapshot
Breast Cancer Biomarker Analysis Using Gene Co-expression Networks
inferred← citeshttps://doi.org/10.1007/978-3-031-69162-1_1openalex-snapshot
Prioritizing Drug Targets in Pathogenic Bacteria by Harnessing Structural Biology, Metabolic Analysis, and Omics Data Integration
inferred← citeshttps://doi.org/10.1007/978-3-031-80866-1_34-1openalex-snapshot
Targeted and Untargeted Metabolomics for Algal Characterization and Application
inferred← citeshttps://doi.org/10.1007/978-3-031-80866-1_34-2openalex-snapshot
Targeted and Untargeted Metabolomics for Algal Characterization and Application
inferred← citeshttps://doi.org/10.1007/978-3-319-06793-3_6openalex-snapshot
Interaction in the Visualization of Multivariate Networks
inferred← citeshttps://doi.org/10.1007/978-3-319-06793-3_9openalex-snapshot
Heterogeneous Networks on Multiple Levels
inferred← citeshttps://doi.org/10.1007/978-3-319-09042-9_16openalex-snapshot
A Framework for Mining Life Sciences Data on the Semantic Web in an Interactive, Graph-Based Environment
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