{"id":"https://openalex.org/W2152013768","doi":"https://doi.org/10.2390/biecoll-jib-2008-91","title":"MoRAine - A web server for fast computational transcription factor binding motif re-annotation","display_name":"MoRAine - A web server for fast computational transcription factor binding motif re-annotation","publication_year":2008,"publication_date":"2008-01-01","ids":{"openalex":"https://openalex.org/W2152013768","doi":"https://doi.org/10.2390/biecoll-jib-2008-91","mag":"2152013768","pmid":"https://pubmed.ncbi.nlm.nih.gov/20134062"},"language":"en","primary_location":{"id":"pmid:20134062","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20134062","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of integrative bioinformatics","raw_type":null},"type":"article","indexed_in":["datacite","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.2390/biecoll-jib-2008-91","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073222532","display_name":"Jan Baumbach","orcid":"https://orcid.org/0000-0002-0282-0462"},"institutions":[{"id":"https://openalex.org/I20121455","display_name":"Bielefeld University","ror":"https://ror.org/02hpadn98","country_code":"DE","type":"education","lineage":["https://openalex.org/I20121455"]},{"id":"https://openalex.org/I203082224","display_name":"Hochschule Bielefeld","ror":"https://ror.org/00edvg943","country_code":"DE","type":"education","lineage":["https://openalex.org/I203082224"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Baumbach, Jan","raw_affiliation_strings":["Genome Informatics, Faculty of Technology, Bielefeld University, D-33594 Bielefeld, Germany"],"affiliations":[{"raw_affiliation_string":"Genome Informatics, Faculty of Technology, Bielefeld University, D-33594 Bielefeld, Germany","institution_ids":["https://openalex.org/I20121455","https://openalex.org/I203082224"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003257949","display_name":"Tobias Wittkop","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Wittkop, Tobias","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020856251","display_name":"Jochen Weile","orcid":"https://orcid.org/0000-0003-1628-9390"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Weile, Jochen","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040272200","display_name":"Thomas A. Kohl","orcid":"https://orcid.org/0000-0002-1126-6803"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kohl, Thomas","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5059606670","display_name":"Sven Rahmann","orcid":"https://orcid.org/0000-0002-8536-6065"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rahmann, Sven","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5073222532"],"corresponding_institution_ids":["https://openalex.org/I20121455","https://openalex.org/I203082224"],"apc_list":null,"apc_paid":null,"fwci":0.8297,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.73092054,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"5","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6739941239356995},{"id":"https://openalex.org/keywords/preprocessor","display_name":"Preprocessor","score":0.5483397841453552},{"id":"https://openalex.org/keywords/motif","display_name":"Motif (music)","score":0.5457469820976257},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.49790072441101074},{"id":"https://openalex.org/keywords/moraine","display_name":"Moraine","score":0.4670257568359375},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.4600723683834076},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.4338880181312561},{"id":"https://openalex.org/keywords/logos-bible-software","display_name":"Logos Bible Software","score":0.42920857667922974},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3966824412345886},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.39021098613739014},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33479541540145874},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26568955183029175},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2192951738834381},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.16762983798980713},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.149293452501297},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.1461886167526245}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6739941239356995},{"id":"https://openalex.org/C34736171","wikidata":"https://www.wikidata.org/wiki/Q918333","display_name":"Preprocessor","level":2,"score":0.5483397841453552},{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.5457469820976257},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.49790072441101074},{"id":"https://openalex.org/C15785411","wikidata":"https://www.wikidata.org/wiki/Q2610088","display_name":"Moraine","level":3,"score":0.4670257568359375},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.4600723683834076},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.4338880181312561},{"id":"https://openalex.org/C150506046","wikidata":"https://www.wikidata.org/wiki/Q6667822","display_name":"Logos Bible Software","level":2,"score":0.42920857667922974},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3966824412345886},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.39021098613739014},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33479541540145874},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26568955183029175},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2192951738834381},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16762983798980713},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.149293452501297},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.1461886167526245},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C15739521","wikidata":"https://www.wikidata.org/wiki/Q602963","display_name":"Glacial period","level":2,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"pmid:20134062","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20134062","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of integrative bioinformatics","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.497.9721","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.497.9721","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.imbio.de/journal/articles/pdf/jib-91.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.583.9779","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.583.9779","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www1.icsi.berkeley.edu/~jbaumbac/downloads/moraine_ib08.pdf","raw_type":"text"},{"id":"pmh:oai:biecoll.ub.uni-bielefeld.de:285","is_oa":false,"landing_page_url":"http://biecoll.ub.uni-bielefeld.de/volltexte/2008/285/","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://journal.imbio.de/index.php?paper_id=91","raw_type":"Journal Article"},{"id":"doi:10.2390/biecoll-jib-2008-91","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2008-91","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.2390/biecoll-jib-2008-91","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2008-91","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},"sustainable_development_goals":[{"display_name":"No poverty","score":0.6499999761581421,"id":"https://metadata.un.org/sdg/1"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":25,"referenced_works":["https://openalex.org/W1737733244","https://openalex.org/W1853093403","https://openalex.org/W1862117967","https://openalex.org/W1976260744","https://openalex.org/W1986841498","https://openalex.org/W1989080074","https://openalex.org/W2013739996","https://openalex.org/W2024060441","https://openalex.org/W2038012561","https://openalex.org/W2055016234","https://openalex.org/W2057000344","https://openalex.org/W2094006378","https://openalex.org/W2094036688","https://openalex.org/W2115490768","https://openalex.org/W2119958068","https://openalex.org/W2122359417","https://openalex.org/W2131706188","https://openalex.org/W2133335149","https://openalex.org/W2135030836","https://openalex.org/W2146856779","https://openalex.org/W2156425900","https://openalex.org/W2158266834","https://openalex.org/W2165392091","https://openalex.org/W2168801969","https://openalex.org/W2913066018"],"related_works":["https://openalex.org/W2383487638","https://openalex.org/W4280550577","https://openalex.org/W2374557109","https://openalex.org/W2327996191","https://openalex.org/W1990444882","https://openalex.org/W2350530641","https://openalex.org/W3003818906","https://openalex.org/W2991579157","https://openalex.org/W4233951753","https://openalex.org/W2152013768"],"abstract_inverted_index":{"MoRAine":[0],"is":[1],"integrated":[2],"into":[3],"a":[4,17],"publicly":[5],"available":[6],"web":[7],"server":[8],"and":[9],"can":[10],"be":[11],"used":[12],"online":[13],"or":[14],"downloaded":[15],"as":[16],"stand-alone":[18],"version":[19],"from":[20],"http://moraine.cebitec.":[21],"uni-bielefeld.de.":[22]},"counts_by_year":[{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}