ArticleNucleic acids research2013
CMCompare webserver: comparing RNA families via covariance models.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- CMV: visualization for RNA and protein family models and their comparisons.Bioinformatics (Oxford, England) · 2018Article
- Article
- Freiburg RNA tools: a central online resource for RNA-focused research and teaching.Nucleic acids research · 2018Article
- The fungal snoRNAome.RNA (New York, N.Y.) · 2018Article
- Know Your Enemy: Successful Bioinformatic Approaches to Predict Functional RNA Structures in Viral RNAs.Frontiers in microbiology · 2017Review
- RNAlien - Unsupervised RNA family model construction.Nucleic acids research · 2016Article
- Hepatitis B virus nuclear export elements: RNA stem-loop α and β, key parts of the HBV post-transcriptional regulatory element.RNA biology · 2016Review
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Authors and funding
3 authors.
Funding
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Abstract
A standard method for the identification of novel non-coding RNAs is homology search by covariance models. Covariance models are constructed for specific RNA families with common sequence and structure (e.g. transfer RNAs). Currently, there are models for 2208 families available from Rfam. Before being included into a database, a proposed family should be tested for specificity (finding only true homolog sequences), sensitivity (finding remote homologs) and uniqueness. The CMCompare webserver (CMCws) compares Infernal RNA family models to (i) identify models with poor specificity and (ii) explore the relationship between models. The CMCws provides options to compare new models against all existing models in the current Rfam database to avoid the construction of duplicate models for the same non-coding RNA family. In addition, the user can explore the relationship between two or more models, including whole sets of user-created family models. Visualization of family relationships provides help in evaluating candidates for clusters of biologically related families, called clans. The CMCws is freely available, without any login requirements, at http://rna.tbi.univie.ac.at/cmcws, and the underlying software is available under the GPL-3 license.
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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.