{"id":11982,"date":"2023-08-22T11:47:04","date_gmt":"2023-08-22T15:47:04","guid":{"rendered":"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/?p=11982"},"modified":"2023-08-22T11:47:04","modified_gmt":"2023-08-22T15:47:04","slug":"ncbi-hidden-markov-models-13","status":"publish","type":"post","link":"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/","title":{"rendered":"NCBI Hidden Markov Models (HMM) Release 13.0 Now Available!"},"content":{"rendered":"<p>Release 13.0 of the NCBI protein profile Hidden Markov models (HMMs) used by the <a href=\"https:\/\/www.ncbi.nlm.nih.gov\/genome\/annotation_prok\/?utm_source=ncbi_insights&amp;utm_medium=referral&amp;utm_campaign=hmm-release-13-20230822\">Prokaryotic Genome Annotation Pipeline<\/a> (PGAP) is now available for <a href=\"https:\/\/ftp.ncbi.nlm.nih.gov\/hmm\/13.0\">download<\/a>. You can search this collection against your favorite prokaryotic proteins to identify their function using the <a href=\"http:\/\/eddylab.org\/software\/hmmer\/Userguide.pdf\">HMMER<\/a> sequence analysis package.<\/p>\n<h5>What\u2019s new?<\/h5>\n<p>The 13.0 release contains:<\/p>\n<ul>\n<li>16,143 HMMs maintained by NCBI<\/li>\n<li>315 new HMMs since release 12.0<\/li>\n<li>286 HMMs with better names, EC numbers, Gene Ontology (GO) terms, gene symbols or publications<\/li>\n<\/ul>\n<p><!--more--><\/p>\n<p>You can search and view the details for these in the <a href=\"https:\/\/www.ncbi.nlm.nih.gov\/protfam?utm_source=ncbi_insights&amp;utm_medium=referral&amp;utm_campaign=hmm-release-13-20230822\">Protein Family Model<\/a> collection, which also includes conserved domain architectures and BlastRules, and find all RefSeq proteins these models name.<\/p>\n<p>GO terms associated with HMMs are now propagated to CDSs and proteins annotated with PGAP. In case you missed it, see our <a href=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2022\/02\/24\/gene-ontology-refseq\/?utm_source=ncbi_insights&amp;utm_medium=referral&amp;utm_campaign=hmm-release-13-20230822\">previous blog post<\/a> on this topic.<\/p>\n<h5>Stay up to date<\/h5>\n<p><span data-contrast=\"auto\">Follow us on social\u202f<\/span><a href=\"https:\/\/twitter.com\/ncbi\"><span data-contrast=\"auto\">@NCBI<\/span><\/a><span data-contrast=\"auto\">\u202fand\u202f<\/span><a href=\"https:\/\/public.govdelivery.com\/accounts\/USNLMOCPL\/subscriber\/new?topic_id=USNLMOCPL_52\"><span data-contrast=\"auto\">join our mailing list<\/span><\/a><span data-contrast=\"auto\">\u202fto keep up to date with\u202fHMM\u202fand other NCBI news.\u202f\u202f<\/span><span data-ccp-props=\"{&quot;134233117&quot;:false,&quot;134233118&quot;:false,&quot;201341983&quot;:0,&quot;335559738&quot;:150,&quot;335559739&quot;:0,&quot;335559740&quot;:240}\">\u00a0<\/span><span data-ccp-props=\"{&quot;201341983&quot;:0,&quot;335559739&quot;:160,&quot;335559740&quot;:259}\">\u00a0<\/span><\/p>\n<h5>We want to hear from you!<\/h5>\n<p><span data-contrast=\"auto\">If you have questions or would like to provide feedback, please reach out to us at <a href=\"mailto:info@ncbi.nlm.nih.gov\">info@ncbi.nlm.nih.gov<\/a>.<\/span><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Release 13.0 of the NCBI protein profile Hidden Markov models (HMMs) used by the Prokaryotic Genome Annotation Pipeline (PGAP) is now available for download. You can search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. What\u2019s new? The 13.0 release contains: 16,143 HMMs maintained by NCBI &hellip; <a href=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/\" class=\"more-link\">Continue reading <span class=\"screen-reader-text\">NCBI Hidden Markov Models (HMM) Release 13.0 Now Available!<\/span> <span class=\"meta-nav\">&rarr;<\/span><\/a><\/p>\n","protected":false},"author":42204617,"featured_media":11987,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_coblocks_attr":"","_coblocks_dimensions":"","_coblocks_responsive_height":"","_coblocks_accordion_ie_support":"","jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"footnotes":"","jetpack_publicize_message":"NCBI Hidden Markov Models (HMM) Release 13.0 Now Available!","jetpack_publicize_feature_enabled":true,"jetpack_social_post_already_shared":true,"jetpack_social_options":{"image_generator_settings":{"template":"highway","enabled":false},"version":2}},"categories":[2248],"tags":[693060700,693060701,15779425],"table_tags":[],"class_list":["post-11982","post","type-post","status-publish","format-standard","has-post-thumbnail","hentry","category-whats-new","tag-hidden-markov-models-hmm","tag-hmmer","tag-pgap"],"jetpack_publicize_connections":[],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v24.6 - https:\/\/yoast.com\/wordpress\/plugins\/seo\/ -->\n<title>NCBI Hidden Markov Models (HMM) Release 13.0 Now Available! - NCBI Insights<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"NCBI Hidden Markov Models (HMM) Release 13.0 Now Available! - NCBI Insights\" \/>\n<meta property=\"og:description\" content=\"Release 13.0 of the NCBI protein profile Hidden Markov models (HMMs) used by the Prokaryotic Genome Annotation Pipeline (PGAP) is now available for download. You can search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. What\u2019s new? The 13.0 release contains: 16,143 HMMs maintained by NCBI &hellip; Continue reading NCBI Hidden Markov Models (HMM) Release 13.0 Now Available! &rarr;\" \/>\n<meta property=\"og:url\" content=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/\" \/>\n<meta property=\"og:site_name\" content=\"NCBI Insights\" \/>\n<meta property=\"article:publisher\" content=\"https:\/\/www.facebook.com\/ncbi.nlm\" \/>\n<meta property=\"article:published_time\" content=\"2023-08-22T15:47:04+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2023\/08\/HMM_Release-5-e1692713713381.png\" \/>\n\t<meta property=\"og:image:width\" content=\"1100\" \/>\n\t<meta property=\"og:image:height\" content=\"575\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/png\" \/>\n<meta name=\"author\" content=\"NCBI Staff\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:creator\" content=\"@NCBI\" \/>\n<meta name=\"twitter:site\" content=\"@NCBI\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"NCBI Staff\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"1 minute\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"Article\",\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/#article\",\"isPartOf\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/\"},\"author\":{\"name\":\"NCBI Staff\",\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/#\/schema\/person\/4f41ea6a31cea38a9a1b1419c048e50b\"},\"headline\":\"NCBI Hidden Markov Models (HMM) Release 13.0 Now Available!\",\"datePublished\":\"2023-08-22T15:47:04+00:00\",\"mainEntityOfPage\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/\"},\"wordCount\":190,\"commentCount\":0,\"publisher\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/#organization\"},\"image\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/#primaryimage\"},\"thumbnailUrl\":\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2023\/08\/HMM_Release-5-e1692713713381.png?fit=1100%2C575&ssl=1\",\"keywords\":[\"Hidden Markov Models (HMM)\",\"HMMER\",\"NCBI Prokaryotic Genome Annotation Pipeline (PGAP)\"],\"articleSection\":[\"What's New\"],\"inLanguage\":\"en-US\",\"potentialAction\":[{\"@type\":\"CommentAction\",\"name\":\"Comment\",\"target\":[\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/#respond\"]}]},{\"@type\":\"WebPage\",\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/\",\"url\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/\",\"name\":\"NCBI Hidden Markov Models (HMM) Release 13.0 Now Available! - NCBI Insights\",\"isPartOf\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/#website\"},\"primaryImageOfPage\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/#primaryimage\"},\"image\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/#primaryimage\"},\"thumbnailUrl\":\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2023\/08\/HMM_Release-5-e1692713713381.png?fit=1100%2C575&ssl=1\",\"datePublished\":\"2023-08-22T15:47:04+00:00\",\"breadcrumb\":{\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/#breadcrumb\"},\"inLanguage\":\"en-US\",\"potentialAction\":[{\"@type\":\"ReadAction\",\"target\":[\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/\"]}]},{\"@type\":\"ImageObject\",\"inLanguage\":\"en-US\",\"@id\":\"https:\/\/ncbiinsights.ncbi.nlm.nih.gov\/2023\/08\/22\/ncbi-hidden-markov-models-13\/#primaryimage\",\"url\":\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2023\/08\/HMM_Release-5-e1692713713381.png?fit=1100%2C575&ssl=1\",\"contentUrl\":\"https:\/\/i0.wp.com\/ncbiinsights.ncbi.nlm.nih.gov\/wp-content\/uploads\/2023\/08\/HMM_Release-5-e1692713713381.png?fit=1100%2C575&ssl=1\",\"width\":1100,\"height\":575,\"caption\":\"Background of colorful squares with letters in them. 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