{"id":"https://openalex.org/W2173100207","doi":"https://doi.org/10.1093/bioinformatics/btv645","title":"No Promoter Left Behind (NPLB): learn <i>de novo</i> promoter architectures from genome-wide transcription start sites","display_name":"No Promoter Left Behind (NPLB): learn <i>de novo</i> promoter architectures from genome-wide transcription start sites","publication_year":2015,"publication_date":"2015-11-02","ids":{"openalex":"https://openalex.org/W2173100207","doi":"https://doi.org/10.1093/bioinformatics/btv645","mag":"2173100207","pmid":"https://pubmed.ncbi.nlm.nih.gov/26530723"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv645","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv645","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/779/49017703/bioinformatics_32_5_779.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/779/49017703/bioinformatics_32_5_779.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5010745473","display_name":"Sneha Mitra","orcid":"https://orcid.org/0000-0002-7718-8721"},"institutions":[{"id":"https://openalex.org/I3125981224","display_name":"National Chemical Laboratory","ror":"https://ror.org/057mn3690","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3125981224","https://openalex.org/I4210134808","https://openalex.org/I66760702"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Sneha Mitra","raw_affiliation_strings":["Chemical Engineering Division, CSIR-National Chemical Laboratory, Pune 411008, India"],"affiliations":[{"raw_affiliation_string":"Chemical Engineering Division, CSIR-National Chemical Laboratory, Pune 411008, India","institution_ids":["https://openalex.org/I3125981224"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5078875370","display_name":"Leelavati Narlikar","orcid":"https://orcid.org/0000-0001-6820-1878"},"institutions":[{"id":"https://openalex.org/I3125981224","display_name":"National Chemical Laboratory","ror":"https://ror.org/057mn3690","country_code":"IN","type":"facility","lineage":["https://openalex.org/I2799351866","https://openalex.org/I3125981224","https://openalex.org/I4210134808","https://openalex.org/I66760702"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Leelavati Narlikar","raw_affiliation_strings":["Chemical Engineering Division, CSIR-National Chemical Laboratory, Pune 411008, India"],"affiliations":[{"raw_affiliation_string":"Chemical Engineering Division, CSIR-National Chemical Laboratory, Pune 411008, India","institution_ids":["https://openalex.org/I3125981224"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5010745473"],"corresponding_institution_ids":["https://openalex.org/I3125981224"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.4527,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.66446129,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"32","issue":"5","first_page":"779","last_page":"781"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9994000196456909,"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":0.9973000288009644,"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/promoter","display_name":"Promoter","score":0.7617892026901245},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6668068170547485},{"id":"https://openalex.org/keywords/tata-box","display_name":"TATA box","score":0.5947960615158081},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5718545913696289},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5326062440872192},{"id":"https://openalex.org/keywords/transcription","display_name":"Transcription (linguistics)","score":0.5235607028007507},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.49682310223579407},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.43796199560165405},{"id":"https://openalex.org/keywords/transcription-factor","display_name":"Transcription factor","score":0.4202840328216553},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4147173762321472},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.11299115419387817}],"concepts":[{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.7617892026901245},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6668068170547485},{"id":"https://openalex.org/C65888428","wikidata":"https://www.wikidata.org/wiki/Q1413955","display_name":"TATA box","level":5,"score":0.5947960615158081},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5718545913696289},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5326062440872192},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.5235607028007507},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.49682310223579407},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.43796199560165405},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.4202840328216553},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4147173762321472},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.11299115419387817},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024363","descriptor_name":"Transcription Initiation Site","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024363","descriptor_name":"Transcription Initiation Site","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024363","descriptor_name":"Transcription Initiation Site","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D024363","descriptor_name":"Transcription Initiation Site","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btv645","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv645","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/779/49017703/bioinformatics_32_5_779.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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:26530723","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26530723","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:europepmc.org:3767187","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4795619","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/5/779","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/5/779","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv645","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv645","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/5/779/49017703/bioinformatics_32_5_779.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":[],"awards":[{"id":"https://openalex.org/G2546210771","display_name":null,"funder_award_id":"Fellowship","funder_id":"https://openalex.org/F4320320717","funder_display_name":"Department of Biotechnology, Ministry of Science and Technology, India"},{"id":"https://openalex.org/G7324291115","display_name":null,"funder_award_id":"Fellowship","funder_id":"https://openalex.org/F4320325580","funder_display_name":"The Wellcome Trust DBT India Alliance"}],"funders":[{"id":"https://openalex.org/F4320311904","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08"},{"id":"https://openalex.org/F4320320717","display_name":"Department of Biotechnology, Ministry of Science and Technology, India","ror":"https://ror.org/03tjsyq23"},{"id":"https://openalex.org/F4320325580","display_name":"The Wellcome Trust DBT India Alliance","ror":"https://ror.org/04reqzt68"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2173100207.pdf","grobid_xml":"https://content.openalex.org/works/W2173100207.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W2038010573","https://openalex.org/W2067116931","https://openalex.org/W2075485921","https://openalex.org/W2097140065","https://openalex.org/W2133464819","https://openalex.org/W2146994504","https://openalex.org/W2155472755","https://openalex.org/W2156885385","https://openalex.org/W2158266834","https://openalex.org/W2558692177"],"related_works":["https://openalex.org/W2134002428","https://openalex.org/W1989509859","https://openalex.org/W1991259976","https://openalex.org/W4245957168","https://openalex.org/W3163988421","https://openalex.org/W186167790","https://openalex.org/W2133676917","https://openalex.org/W1993786842","https://openalex.org/W2129029591","https://openalex.org/W3189329212"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2023,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2016-06-24T00:00:00"}
