{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,9,9]],"date-time":"2025-09-09T20:38:39Z","timestamp":1757450319251,"version":"3.37.3"},"reference-count":15,"publisher":"Oxford University Press (OUP)","issue":"15","license":[{"start":{"date-parts":[[2018,3,15]],"date-time":"2018-03-15T00:00:00Z","timestamp":1521072000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"Austrian Fonds zur F\u00f6rderung der wissenschaftlichen Forschung"},{"DOI":"10.13039\/501100002428","name":"FWF","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100002428","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Doktoratskolleg RNA Biology","award":["W1207-B09"],"award-info":[{"award-number":["W1207-B09"]}]},{"name":"Deutsche Forschungs Gesellschaft"},{"DOI":"10.13039\/100004807","name":"DFG","doi-asserted-by":"publisher","award":["BA 2168\/3-3"],"award-info":[{"award-number":["BA 2168\/3-3"]}],"id":[{"id":"10.13039\/100004807","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100004807","name":"DFG","doi-asserted-by":"publisher","award":["BA 2168\/16-1"],"award-info":[{"award-number":["BA 2168\/16-1"]}],"id":[{"id":"10.13039\/100004807","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100002428","name":"FWF","doi-asserted-by":"publisher","award":["F 4305-B09"],"award-info":[{"award-number":["F 4305-B09"]}],"id":[{"id":"10.13039\/501100002428","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,8,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>A standard method for the identification of novel RNAs or proteins is homology search via probabilistic models. One approach relies on the definition of families, which can be encoded as covariance models (CMs) or Hidden Markov Models (HMMs). While being powerful tools, their complexity makes it tedious to investigate them in their (default) tabulated form. This specifically applies to the interpretation of comparisons between multiple models as in family clans. The Covariance model visualization tools (CMV) visualize CMs or HMMs to: I) Obtain an easily interpretable representation of HMMs and CMs; II) Put them in context with the structural sequence alignments they have been created from; III) Investigate results of model comparisons and highlight regions of interest.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>Source code (http:\/\/www.github.com\/eggzilla\/cmv), web-service (http:\/\/rna.informatik.uni-freiburg.de\/CMVS).<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/bty158","type":"journal-article","created":{"date-parts":[[2018,3,15]],"date-time":"2018-03-15T10:02:55Z","timestamp":1521108175000},"page":"2676-2678","source":"Crossref","is-referenced-by-count":5,"title":["CMV: visualization for RNA and protein family models and their comparisons"],"prefix":"10.1093","volume":"34","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9564-7525","authenticated-orcid":false,"given":"Florian","family":"Eggenhofer","sequence":"first","affiliation":[{"name":"Bioinformatics Group, Department of Computer Science, University of Freiburg, Freiburg, Germany"},{"name":"Institute for Theoretical Chemistry, University of Vienna, Vienna, Austria"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ivo L","family":"Hofacker","sequence":"additional","affiliation":[{"name":"Institute for Theoretical Chemistry, University of Vienna, Vienna, Austria"},{"name":"Bioinformatics and Computational Biology Research Group, University of Vienna, Vienna, Austria"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rolf","family":"Backofen","sequence":"additional","affiliation":[{"name":"Bioinformatics Group, Department of Computer Science, University of Freiburg, Freiburg, Germany"},{"name":"Centre for Biological Signalling Studies (BIOSS), University of Freiburg, Freiburg, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Christian","family":"H\u00f6ner zu Siederdissen","sequence":"additional","affiliation":[{"name":"Institute for Theoretical Chemistry, University of Vienna, Vienna, Austria"},{"name":"Bioinformatics Group, Department of Computer Science, University of Leipzig, D-04107 Leipzig, Germany"},{"name":"Interdisciplinary Center for Bioinformatics, University of Leipzig, D-04107 Leipzig, Germany"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2018,3,15]]},"reference":[{"key":"2023012713090669400_bty158-B1","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1016\/j.jbiotec.2017.05.019","article-title":"RNA-bioinformatics: tools, services and databases for the analysis of RNA-based regulation","volume":"261","author":"Backofen","year":"2017","journal-title":"J. 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