{"id":29775,"date":"2024-02-15T12:09:16","date_gmt":"2024-02-15T12:09:16","guid":{"rendered":"https:\/\/www.embl.org\/groups\/hentze\/?page_id=29775"},"modified":"2025-10-06T13:36:45","modified_gmt":"2025-10-06T13:36:45","slug":"community-resources","status":"publish","type":"page","link":"https:\/\/www.embl.org\/groups\/hentze\/home\/community-resources\/","title":{"rendered":"Community resources"},"content":{"rendered":"\n<h2 class=\"wp-block-heading\">Databases and tools<\/h2>\n\n\n\n<p><strong><a href=\"http:\/\/rbpbase.shiny.embl.de\" target=\"_blank\" rel=\"noreferrer noopener\">RBPbase<\/a><\/strong><\/p>\n\n\n\n<p>Database of RNA-binding proteins identified by high-throughput identification studies. <\/p>\n\n\n\n<p><strong><a href=\"https:\/\/htseq-clip.readthedocs.io\/\" target=\"_blank\" rel=\"noreferrer noopener\">htseq-clip<\/a><\/strong><\/p>\n\n\n\n<p>Preprocessing tools for single-nucleotide resolution sequencing data like eCLIP or iCLIP.<\/p>\n\n\n\n<p><strong><a href=\"https:\/\/shoji.readthedocs.io\/en\/latest\/\" target=\"_blank\" rel=\"noreferrer noopener\">Shoji<\/a><\/strong><\/p>\n\n\n\n<p>Updated htseq-clip for preprocessing single-nucleotide resolution sequencing data like eCLIP or iCLIP.<\/p>\n\n\n\n<p><a rel=\"noreferrer noopener\" href=\"https:\/\/bioconductor.org\/packages\/release\/bioc\/html\/DEWSeq.html\" data-type=\"URL\" data-id=\"https:\/\/bioconductor.org\/packages\/release\/bioc\/html\/DEWSeq.html\" target=\"_blank\"><strong>DEWSeq<\/strong><\/a><\/p>\n\n\n\n<p>Method for identifying binding sites in single-nucleotide resolution sequencing data like eCLIP or iCLIP.<\/p>\n\n\n\n<p><a href=\"https:\/\/usegalaxy.eu\/root?tool_id=toolshed.g2.bx.psu.edu\/repos\/rnateam\/rbpbench\/rbpbench\/0.8.1+galaxy0\" data-type=\"URL\" data-id=\"https:\/\/bioconductor.org\/packages\/release\/bioc\/html\/DEWSeq.html\" target=\"_blank\" rel=\"noreferrer noopener\"><strong>RBPBench<\/strong><\/a><\/p>\n\n\n\n<p>Evaluate CLIP-seq and other genomic region data using a comprehensive collection of RBP binding motifs.<\/p>\n\n\n\n<p><\/p>\n","protected":false},"excerpt":{"rendered":"<p>Databases and tools RBPbase Database of RNA-binding proteins identified by high-throughput identification studies. htseq-clip Preprocessing tools for single-nucleotide resolution sequencing data like eCLIP or iCLIP. Shoji Updated htseq-clip for preprocessing single-nucleotide resolution sequencing&hellip;<\/p>\n","protected":false},"author":20,"featured_media":0,"parent":15,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":false,"footnotes":""},"embl_taxonomy":[],"class_list":["post-29775","page","type-page","status-publish","hentry"],"acf":[],"embl_taxonomy_terms":[],"_links":{"self":[{"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/pages\/29775","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/users\/20"}],"replies":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/comments?post=29775"}],"version-history":[{"count":6,"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/pages\/29775\/revisions"}],"predecessor-version":[{"id":67015,"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/pages\/29775\/revisions\/67015"}],"up":[{"embeddable":true,"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/pages\/15"}],"wp:attachment":[{"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/media?parent=29775"}],"wp:term":[{"taxonomy":"embl_taxonomy","embeddable":true,"href":"https:\/\/www.embl.org\/groups\/hentze\/wp-json\/wp\/v2\/embl_taxonomy?post=29775"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}