{"id":"https://openalex.org/W7135064157","doi":"https://doi.org/10.1093/bioinformatics/btag116","title":"TerminatorNet: comprehensive identification of intrinsic transcription terminators in bacteria","display_name":"TerminatorNet: comprehensive identification of intrinsic transcription terminators in bacteria","publication_year":2026,"publication_date":"2026-02-28","ids":{"openalex":"https://openalex.org/W7135064157","doi":"https://doi.org/10.1093/bioinformatics/btag116","pmid":"https://pubmed.ncbi.nlm.nih.gov/41812042"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btag116","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag116","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bioinformatics/btag116","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Brian Tjaden","orcid":"https://orcid.org/0009-0002-8664-7296"},"institutions":[{"id":"https://openalex.org/I189731429","display_name":"Wellesley College","ror":"https://ror.org/01srpnj69","country_code":"US","type":"education","lineage":["https://openalex.org/I189731429"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Brian Tjaden","raw_affiliation_strings":["Department of Computer Science, Wellesley College , Wellesley, MA 02481,"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wellesley College , Wellesley, MA 02481,","institution_ids":["https://openalex.org/I189731429"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I189731429"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.65021409,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"42","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.934499979019165,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.934499979019165,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.007799999788403511,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.004999999888241291,"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/identification","display_name":"Identification (biology)","score":0.7574999928474426},{"id":"https://openalex.org/keywords/bacteria","display_name":"Bacteria","score":0.5579000115394592},{"id":"https://openalex.org/keywords/transcription","display_name":"Transcription (linguistics)","score":0.49729999899864197},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.3817000091075897},{"id":"https://openalex.org/keywords/bacterial-transcription","display_name":"Bacterial transcription","score":0.3208000063896179}],"concepts":[{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.7574999928474426},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6274999976158142},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6033999919891357},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.5579000115394592},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.49729999899864197},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4074000120162964},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.3817000091075897},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3677999973297119},{"id":"https://openalex.org/C26261996","wikidata":"https://www.wikidata.org/wiki/Q2382392","display_name":"Bacterial transcription","level":5,"score":0.3208000063896179},{"id":"https://openalex.org/C2993175405","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Bacterial protein","level":3,"score":0.2994999885559082},{"id":"https://openalex.org/C180223184","wikidata":"https://www.wikidata.org/wiki/Q4839986","display_name":"Bacterial genetics","level":4,"score":0.2985000014305115},{"id":"https://openalex.org/C2908821069","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli Proteins","level":4,"score":0.2768999934196472}],"mesh":[{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009876","descriptor_name":"Operon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009876","descriptor_name":"Operon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009876","descriptor_name":"Operon","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":"D013728","descriptor_name":"Terminator Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013728","descriptor_name":"Terminator Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013728","descriptor_name":"Terminator Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D061806","descriptor_name":"Transcription Termination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D061806","descriptor_name":"Transcription Termination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D061806","descriptor_name":"Transcription Termination, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btag116","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag116","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41812042","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41812042","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:13020248","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC13020248/","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btag116","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag116","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.7330165505409241,"id":"https://metadata.un.org/sdg/2","display_name":"Zero hunger"}],"awards":[{"id":"https://openalex.org/G3210274256","display_name":null,"funder_award_id":"R15 GM102755","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5592155341","display_name":null,"funder_award_id":"GM102755","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":44,"referenced_works":["https://openalex.org/W1974735876","https://openalex.org/W1979197349","https://openalex.org/W1986713368","https://openalex.org/W1986778616","https://openalex.org/W1987568156","https://openalex.org/W1998614048","https://openalex.org/W2005436483","https://openalex.org/W2012681204","https://openalex.org/W2018819460","https://openalex.org/W2043923482","https://openalex.org/W2050256969","https://openalex.org/W2070063001","https://openalex.org/W2105199251","https://openalex.org/W2109295007","https://openalex.org/W2143485490","https://openalex.org/W2146958608","https://openalex.org/W2152954697","https://openalex.org/W2156274103","https://openalex.org/W2169916860","https://openalex.org/W2199968103","https://openalex.org/W2315132400","https://openalex.org/W2512558631","https://openalex.org/W2738840941","https://openalex.org/W2766648240","https://openalex.org/W2797492921","https://openalex.org/W2804476733","https://openalex.org/W2892079508","https://openalex.org/W2927873716","https://openalex.org/W2931564089","https://openalex.org/W2936939290","https://openalex.org/W2964121744","https://openalex.org/W2969461414","https://openalex.org/W3108663073","https://openalex.org/W3109735703","https://openalex.org/W3111408663","https://openalex.org/W3212385379","https://openalex.org/W4221068975","https://openalex.org/W4281633476","https://openalex.org/W4284709634","https://openalex.org/W4300861926","https://openalex.org/W4389137921","https://openalex.org/W4389167204","https://openalex.org/W4408249210","https://openalex.org/W4411927778"],"related_works":[],"abstract_inverted_index":{"TerminatorNet":[0],"and":[1,22],"its":[2],"repository":[3],"of":[4],"identifications":[5],"are":[6],"available":[7,18],"for":[8],"use":[9],"via":[10],"a":[11],"webserver:":[12],"https://cs.wellesley.edu/\u223cbtjaden/TermNet.":[13],"The":[14],"source":[15],"code":[16],"is":[17],"at":[19],"GitHub":[20],"https://github.com/btjaden/TerminatorNet":[21],"Zenodo":[23],"https://doi.org/10.5281/zenodo.18406126.":[24]},"counts_by_year":[],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2026-02-02T00:00:00"}
