Cytoscape StringApp: Network Analysis and Visualization of Proteomics Data
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Summary
Many of the stringApp features are introduced and it is shown how they can be used to carry out complex network analysis and visualization tasks on a typical proteomics dataset, all through the Cytoscape user interface.
- Type
- preprint
- Published
- 2018-10-11
- Cited by
- 1,945
- References
- 28
- Access
- Open access
- OpenAlex
- https://openalex.org/W2896195563
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:53950126
Keywords
Workflow, Computer science, Visualization, Toolbox, Flexibility (engineering)
References
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- ColorBrewer.org: An Online Tool for Selecting Colour Schemes for Maps
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- An efficient algorithm for large-scale detection of protein families.
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- Selection of representative protein data sets
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- A promising approach to scale up health care improvements in low-and middle-income countries: the Wave-Sequence Spread Approach and the concept of the Slice of a System
- STITCH 5: augmenting protein–chemical interaction networks with tissue and affinity data
- The GeneCards Suite: From Gene Data Mining to Disease Genome Sequence Analyses
- The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible
- Pharos: Collating protein information to shed light on the druggable genome
- PTMOracle: A Cytoscape App for Covisualizing and Coanalyzing Post-Translational Modifications in Protein Interaction Networks.
Cited by
- PerMemDB: a database for eukaryotic peripheral membrane proteins
- The EntOptLayout Cytoscape plug-in for the efficient visualization of major protein complexes in protein–protein interaction and signalling networks
- Impacts of Elevated CO2 Levels on the Soil Bacterial Community in a Natural CO2-Enhanced Oil Recovery Area
- Neuropathological and genomic characterization of glioblastoma‐induced rat model: How similar is it to humans for targeted therapy?
- In silico characterization of a “universal” Treg signature reveals the proenkephalin gene as a novel Treg marker
- Circadian time series proteomics reveals daily dynamics in cartilage physiology
- Global Proteome and Ubiquitinome Changes in the Soluble and Insoluble Fractions of Q175 Huntington Mice Brains*
- Combined EGFR and ROCK inhibition in TNBC leads to cell death via impaired autophagic flux
- Differentially Expressed Gene Screening, Biological Function Enrichment, and Correlation with Prognosis in Non-Small Cell Lung Cancer
- The Ubiquitin Proteasome System Is a Key Regulator of Pluripotent Stem Cell Survival and Motor Neuron Differentiation
- Study of BDE-47 induced Parkinson's disease-like metabolic changes in C57BL/6 mice by integrated metabolomic, lipidomic and proteomic analysis.
- Proteomic characterization of chromosomal common fragile site (CFS)-associated proteins uncovers ATRX as a regulator of CFS stability
- MicroRNAs fingerprint of bicuspid aortic valve.
- Clinicohistopathological implications of MMP/VEGF expression in retinoblastoma: a combined meta-analysis and bioinformatics analysis
- Next-generation sequencing predicts interaction network between miRNA and target genes in lipoteichoic acid-stimulated human neutrophils
- Comprehensive analysis the potential biomarkers for the high-risk of childhood acute myeloid leukemia based on a competing endogenous RNA network.
- A six-gene-based prognostic model predicts complete remission and overall survival in childhood acute myeloid leukemia
- Proceedings of the EuBIC Winter School 2019
- Mining cancer biology through bioinformatic analysis of proteomic data
- Adipose Mesenchymal Extracellular Vesicles as Alpha-1-Antitrypsin Physiological Delivery Systems for Lung Regeneration
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