{"id":"https://openalex.org/W3199201022","doi":"https://doi.org/10.1093/bioinformatics/btab624","title":"DIMPL: a bioinformatics pipeline for the discovery of structured noncoding RNA motifs in bacteria","display_name":"DIMPL: a bioinformatics pipeline for the discovery of structured noncoding RNA motifs in bacteria","publication_year":2021,"publication_date":"2021-09-10","ids":{"openalex":"https://openalex.org/W3199201022","doi":"https://doi.org/10.1093/bioinformatics/btab624","mag":"3199201022","pmid":"https://pubmed.ncbi.nlm.nih.gov/34524415"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab624","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab624","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/533/42039881/btab624.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/38/2/533/42039881/btab624.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5037593242","display_name":"Kenneth I. Brewer","orcid":"https://orcid.org/0000-0003-4030-0254"},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kenneth I Brewer","raw_affiliation_strings":["Department of Molecular Biophysics and Biochemistry, Yale University , New Haven, CT 06520-8103, USA"],"raw_orcid":"https://orcid.org/0000-0003-4030-0254","affiliations":[{"raw_affiliation_string":"Department of Molecular Biophysics and Biochemistry, Yale University , New Haven, CT 06520-8103, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071047882","display_name":"Glenn J Gaffield","orcid":"https://orcid.org/0000-0002-8542-1861"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Glenn J Gaffield","raw_affiliation_strings":["Howard Hughes Medical Institute, Yale University , New Haven, CT 06520-8103, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Howard Hughes Medical Institute, Yale University , New Haven, CT 06520-8103, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I32971472"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075569732","display_name":"Malavika Puri","orcid":null},"institutions":[{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Malavika Puri","raw_affiliation_strings":["Department of Molecular, Cellular and Developmental Biology, Yale University , New Haven, CT 06520-8103, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular, Cellular and Developmental Biology, Yale University , New Haven, CT 06520-8103, USA","institution_ids":["https://openalex.org/I32971472"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058375820","display_name":"Ronald R. Breaker","orcid":"https://orcid.org/0000-0002-2165-536X"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I32971472","display_name":"Yale University","ror":"https://ror.org/03v76x132","country_code":"US","type":"education","lineage":["https://openalex.org/I32971472"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ronald R Breaker","raw_affiliation_strings":["Department of Molecular Biophysics and Biochemistry, Yale University , New Haven, CT 06520-8103, USA","Department of Molecular, Cellular and Developmental Biology, Yale University , New Haven, CT 06520-8103, USA","Howard Hughes Medical Institute, Yale University , New Haven, CT 06520-8103, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Biophysics and Biochemistry, Yale University , New Haven, CT 06520-8103, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Department of Molecular, Cellular and Developmental Biology, Yale University , New Haven, CT 06520-8103, USA","institution_ids":["https://openalex.org/I32971472"]},{"raw_affiliation_string":"Howard Hughes Medical Institute, Yale University , New Haven, CT 06520-8103, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I32971472"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5058375820"],"corresponding_institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I32971472"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.2223,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.49140161,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"38","issue":"2","first_page":"533","last_page":"535"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.8108000159263611,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.8108000159263611,"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.13750000298023224,"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/T11482","display_name":"RNA modifications and cancer","score":0.02810000069439411,"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/pipeline","display_name":"Pipeline (software)","score":0.7696647047996521},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5897865295410156},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.550327479839325},{"id":"https://openalex.org/keywords/riboswitch","display_name":"Riboswitch","score":0.5438469052314758},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"Non-coding RNA","score":0.5347316265106201},{"id":"https://openalex.org/keywords/intergenic-region","display_name":"Intergenic region","score":0.5222938060760498},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.47033438086509705},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.35292214155197144},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3510401248931885},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.16919586062431335},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.16907748579978943},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.12017661333084106},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11818656325340271}],"concepts":[{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.7696647047996521},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5897865295410156},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.550327479839325},{"id":"https://openalex.org/C148625055","wikidata":"https://www.wikidata.org/wiki/Q418840","display_name":"Riboswitch","level":5,"score":0.5438469052314758},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.5347316265106201},{"id":"https://openalex.org/C195139083","wikidata":"https://www.wikidata.org/wiki/Q3463539","display_name":"Intergenic region","level":4,"score":0.5222938060760498},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.47033438086509705},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.35292214155197144},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3510401248931885},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16919586062431335},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.16907748579978943},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.12017661333084106},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11818656325340271},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab624","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab624","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/533/42039881/btab624.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:34524415","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34524415","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:8723152","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8723152","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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/btab624","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab624","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/38/2/533/42039881/btab624.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/G2883550240","display_name":null,"funder_award_id":"P01-GM022778","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G2933377874","display_name":"Exploiting Riboswitch Sensors to Reveal Antibiotics Uptake and Retention in Gram Negative Bacteria","funder_award_id":"5r01ai136794-05","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2939352787","display_name":null,"funder_award_id":"S10 RR029676","funder_id":"https://openalex.org/F4320337375","funder_display_name":"National Center for Research Resources"},{"id":"https://openalex.org/G390921839","display_name":null,"funder_award_id":"R01 AI136794","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G8527176408","display_name":"Structural bases of the functions of RNA-protein machines","funder_award_id":"5p01gm022778-43","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306082","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"},{"id":"https://openalex.org/F4320337375","display_name":"National Center for Research Resources","ror":"https://ror.org/04pw6fb54"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":26,"referenced_works":["https://openalex.org/W1972139720","https://openalex.org/W2011271395","https://openalex.org/W2032510444","https://openalex.org/W2101234009","https://openalex.org/W2114998496","https://openalex.org/W2122679732","https://openalex.org/W2122914162","https://openalex.org/W2140874466","https://openalex.org/W2141152740","https://openalex.org/W2142678478","https://openalex.org/W2152054441","https://openalex.org/W2173732482","https://openalex.org/W2296335794","https://openalex.org/W2554065905","https://openalex.org/W2605443933","https://openalex.org/W2742645875","https://openalex.org/W2807674901","https://openalex.org/W2809873931","https://openalex.org/W2926736403","https://openalex.org/W2945961787","https://openalex.org/W3094113464","https://openalex.org/W3163684305","https://openalex.org/W4251386234","https://openalex.org/W6675354045","https://openalex.org/W6697144307","https://openalex.org/W6752758546"],"related_works":["https://openalex.org/W1988553110","https://openalex.org/W2419364582","https://openalex.org/W2400719429","https://openalex.org/W2951140384","https://openalex.org/W320806141","https://openalex.org/W3213370823","https://openalex.org/W2009133056","https://openalex.org/W2524503478","https://openalex.org/W2304056734","https://openalex.org/W2041710960"],"abstract_inverted_index":{"SUMMARY:":[0],"Recent":[1],"efforts":[2],"to":[3],"identify":[4],"novel":[5],"bacterial":[6,47],"structured":[7,53],"noncoding":[8],"RNA":[9],"(ncRNA)":[10],"motifs":[11],"through":[12],"searching":[13],"long,":[14],"GC-rich":[15],"intergenic":[16],"regions":[17],"(IGRs)":[18],"have":[19],"revealed":[20],"several":[21],"new":[22],"classes,":[23],"including":[24],"the":[25,58],"recently":[26],"validated":[27],"HMP-PP":[28],"riboswitch.":[29],"The":[30,70],"DIMPL":[31,56,71],"(Discovery":[32],"of":[33,46,84],"Intergenic":[34],"Motifs":[35],"PipeLine)":[36],"discovery":[37],"pipeline":[38,72],"described":[39],"herein":[40],"enables":[41],"rapid":[42],"extraction":[43],"and":[44,91],"selection":[45],"IGRs":[48],"that":[49],"are":[50,93,101],"enriched":[51],"for":[52,63,89],"ncRNAs.":[54],"Moreover,":[55],"automates":[57],"subsequent":[59],"computational":[60],"steps":[61],"necessary":[62],"their":[64],"functional":[65],"identification.":[66],"AVAILABILITY":[67],"AND":[68],"IMPLEMENTATION:":[69],"is":[73],"freely":[74],"available":[75,94,102],"as":[76],"a":[77],"Docker":[78],"image":[79],"with":[80],"an":[81],"accompanying":[82],"set":[83],"Jupyter":[85],"notebooks.":[86],"Full":[87],"instructions":[88],"download":[90],"use":[92],"at":[95,103],"https://github.com/breakerlab/dimpl.":[96],"SUPPLEMENTARY":[97],"INFORMATION:":[98],"Supplementary":[99],"data":[100],"Bioinformatics":[104],"online.":[105]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2}],"updated_date":"2026-08-06T08:24:18.245995","created_date":"2025-10-10T00:00:00"}
