ArticleBioData mining2008
A survey of visualization tools for biological network analysis.
Article in BioData mining, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 71 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
71 citing papers in PubMed.
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- Visualizing metagenomic and metatranscriptomic data: A comprehensive review.Computational and structural biotechnology journal · 2024Review
- Global Traction Battery Cathode Material Industrial Chain Trade Analysis: A Multilayer Modeling Approach.Entropy (Basel, Switzerland) · 2024Article
- Mondrian Abstraction and Language Model Embeddings for Differential Pathway Analysis.bioRxiv : the preprint server for biology · 2024Article
- Identification of key modules and driving genes in nonalcoholic fatty liver disease by weighted gene co-expression network analysis.BMC genomics · 2023Article
- Arena3DNAR genomics and bioinformatics · 2023Article
- Exploring microbial functional biodiversity at the protein family level-From metagenomic sequence reads to annotated protein clusters.Frontiers in bioinformatics · 2023Review
- NORMA: The Network Makeup Artist - A Web Tool for Network Annotation Visualization.Genomics, proteomics & bioinformatics · 2022Article
- Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining.Biomolecules · 2022Article
- Topological Analysis on Multi-scenario Graphs: Applications Toward Discerning Variability in SARS-CoV-2 and Topic Similarity in Research.Transactions of the Indian National Academy of Engineering : an international journal of engineering and technology · 2022Article
- OnTheFlyNAR genomics and bioinformatics · 2021Article
- Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review.Biomolecules · 2021Review
- FLAME: A Web Tool for Functional and Literature Enrichment Analysis of Multiple Gene Lists.Biology · 2021Article
- Arena3Dweb: interactive 3D visualization of multilayered networks.Nucleic acids research · 2021Article
- A method to analyze time expression profiles demonstrated in a database of chili pepper fruit development.Scientific reports · 2021Article
- ViralLink: An integrated workflow to investigate the effect of SARS-CoV-2 on intracellular signalling and regulatory pathways.PLoS computational biology · 2021Article
- High BLM Expression Predicts Poor Clinical Outcome and Contributes to Malignant Progression in Human Cholangiocarcinoma.Frontiers in oncology · 2021Article
- Visualizing metabolic network dynamics through time-series metabolomic data.BMC bioinformatics · 2020Article
- eXplainable Artificial Intelligence (XAI) for the identification of biologically relevant gene expression patterns in longitudinal human studies, insights from obesity research.PLoS computational biology · 2020Article
- Evaluation of long-term consumption of omeprazole disadvantages: a network analysis.Gastroenterology and hepatology from bed to bench · 2020Article
11 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The analysis and interpretation of relationships between biological molecules, networks and concepts is becoming a major bottleneck in systems biology. Very often the pure amount of data and their heterogeneity provides a challenge for the visualization of the data. There are a wide variety of graph representations available, which most often map the data on 2D graphs to visualize biological interactions. These methods are applicable to a wide range of problems, nevertheless many of them reach a limit in terms of user friendliness when thousands of nodes and connections have to be analyzed and visualized. In this study we are reviewing visualization tools that are currently available for visualization of biological networks mainly invented in the latest past years. We comment on the functionality, the limitations and the specific strengths of these tools, and how these tools could be further developed in the direction of data integration and information sharing.
Identifiers
What OpenQuestion holds
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.