ArticleNucleic acids research2008
FunSimMat: a comprehensive functional similarity database.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- MonaGO: a novel gene ontology enrichment analysis visualisation system.BMC bioinformatics · 2022Article
- HESML: a real-time semantic measures library for the biomedical domain with a reproducible survey.BMC bioinformatics · 2022Article
- More Agility to Semantic Similarities Algorithm Implementations.International journal of environmental research and public health · 2019Article
- Multi-domain semantic similarity in biomedical research.BMC bioinformatics · 2019Article
- GO functional similarity clustering depends on similarity measure, clustering method, and annotation completeness.BMC bioinformatics · 2019Article
- Semantic Disease Gene Embeddings (SmuDGE): phenotype-based disease gene prioritization without phenotypes.Bioinformatics (Oxford, England) · 2018Article
- Article
- Global multiple protein-protein interaction network alignment by combining pairwise network alignments.BMC bioinformatics · 2015Article
- MAE-FMD: multi-agent evolutionary method for functional module detection in protein-protein interaction networks.BMC bioinformatics · 2014Article
- Functional module search in protein networks based on semantic similarity improves the analysis of proteomics data.Molecular & cellular proteomics : MCP · 2014Article
- FSim: a novel functional similarity search algorithm and tool for discovering functionally related gene products.BioMed research international · 2014Article
- Drug-target interaction prediction by integrating chemical, genomic, functional and pharmacological data.Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · 2014Article
- DaGO-Fun: tool for Gene Ontology-based functional analysis using term information content measures.BMC bioinformatics · 2013Article
- Identification of additional proteins in differential proteomics using protein interaction networks.Proteomics · 2013Article
- Revealing functionally coherent subsets using a spectral clustering and an information integration approach.BMC systems biology · 2012Article
- GO-based functional dissimilarity of gene sets.BMC bioinformatics · 2011Article
- Correlation between protein function and ligand binding profiles.Journal of proteome research · 2011Article
- Article
- An improved method for scoring protein-protein interactions using semantic similarity within the gene ontology.BMC bioinformatics · 2010Article
- Functional and evolutionary correlates of gene constellations in the Drosophila melanogaster genome that deviate from the stereotypical gene architecture.BMC genomics · 2010Article
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2 authors.
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Abstract
Functional similarity based on Gene Ontology (GO) annotation is used in diverse applications like gene clustering, gene expression data analysis, protein interaction prediction and evaluation. However, there exists no comprehensive resource of functional similarity values although such a database would facilitate the use of functional similarity measures in different applications. Here, we describe FunSimMat (Functional Similarity Matrix, http://funsimmat.bioinf.mpi-inf.mpg.de/), a large new database that provides several different semantic similarity measures for GO terms. It offers various precomputed functional similarity values for proteins contained in UniProtKB and for protein families in Pfam and SMART. The web interface allows users to efficiently perform both semantic similarity searches with GO terms and functional similarity searches with proteins or protein families. All results can be downloaded in tab-delimited files for use with other tools. An additional XML-RPC interface gives automatic online access to FunSimMat for programs and remote services.
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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.