ArticleNucleic acids research2015
NaviCell Web Service for network-based data visualization.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- A guide for developing comprehensive systems biology maps of disease mechanisms: planning, construction and maintenance.Frontiers in bioinformatics · 2023Article
- CyFi-MAP: an interactive pathway-based resource for cystic fibrosis.Scientific reports · 2021Article
- Systems Biology Analysis for Ewing Sarcoma.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Collective intelligence defines biological functions in Wikipedia as communities in the hidden protein connection network.PLoS computational biology · 2020Article
- Independent Component Analysis for Unraveling the Complexity of Cancer Omics Datasets.International journal of molecular sciences · 2019Review
- Metabolic and signalling network maps integration: application to cross-talk studies and omics data analysis in cancer.BMC bioinformatics · 2019Article
- Community-driven roadmap for integrated disease maps.Briefings in bioinformatics · 2019Review
- Clustering approaches for visual knowledge exploration in molecular interaction networks.BMC bioinformatics · 2018Article
- Signalling maps in cancer research: construction and data analysis.Database : the journal of biological databases and curation · 2018Article
- Classification of gene signatures for their information value and functional redundancy.NPJ systems biology and applications · 2018Article
- Systems medicine disease maps: community-driven comprehensive representation of disease mechanisms.NPJ systems biology and applications · 2018Article
- Drug-Driven Synthetic Lethality: Bypassing Tumor Cell Genetics with a Combination of AsiDNA and PARP Inhibitors.Clinical cancer research : an official journal of the American Association for Cancer Research · 2017Article
- NaviCom: a web application to create interactive molecular network portraits using multi-level omics data.Database : the journal of biological databases and curation · 2017Article
- Bridging the gap between clinicians and systems biologists: from network biology to translational biomedical research.Journal of translational medicine · 2016Review
- Integration and Visualization of Translational Medicine Data for Better Understanding of Human Diseases.Big data · 2016Article
- MINERVA-a platform for visualization and curation of molecular interaction networks.NPJ systems biology and applications · 2016Article
- DeDaL: Cytoscape 3 app for producing and morphing data-driven and structure-driven network layouts.BMC systems biology · 2015Article
- Atlas of Cancer Signalling Network: a systems biology resource for integrative analysis of cancer data with Google Maps.Oncogenesis · 2015Article
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Data visualization is an essential element of biological research, required for obtaining insights and formulating new hypotheses on mechanisms of health and disease. NaviCell Web Service is a tool for network-based visualization of 'omics' data which implements several data visual representation methods and utilities for combining them together. NaviCell Web Service uses Google Maps and semantic zooming to browse large biological network maps, represented in various formats, together with different types of the molecular data mapped on top of them. For achieving this, the tool provides standard heatmaps, barplots and glyphs as well as the novel map staining technique for grasping large-scale trends in numerical values (such as whole transcriptome) projected onto a pathway map. The web service provides a server mode, which allows automating visualization tasks and retrieving data from maps via RESTful (standard HTTP) calls. Bindings to different programming languages are provided (Python and R). We illustrate the purpose of the tool with several case studies using pathway maps created by different research groups, in which data visualization provides new insights into molecular mechanisms involved in systemic diseases such as cancer and neurodegenerative diseases.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.