{"id":"https://openalex.org/W2908437265","doi":"https://doi.org/10.1016/j.compbiomed.2018.12.014","title":"PLIT: An alignment-free computational tool for identification of long non-coding RNAs in plant transcriptomic datasets","display_name":"PLIT: An alignment-free computational tool for identification of long non-coding RNAs in plant transcriptomic datasets","publication_year":2019,"publication_date":"2019-01-04","ids":{"openalex":"https://openalex.org/W2908437265","doi":"https://doi.org/10.1016/j.compbiomed.2018.12.014","mag":"2908437265","pmid":"https://pubmed.ncbi.nlm.nih.gov/30665012"},"language":"en","primary_location":{"is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.compbiomed.2018.12.014","pdf_url":null,"source":{"id":"https://openalex.org/S44278595","display_name":"Computers in Biology and Medicine","issn_l":"0010-4825","issn":["0010-4825","1879-0534"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},"type":"article","type_crossref":"journal-article","indexed_in":["arxiv","crossref","datacite","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/1902.05064","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5007684834","display_name":"Sumukh Deshpande","orcid":null},"institutions":[{"id":"https://openalex.org/I73417466","display_name":"Coventry University","ror":"https://ror.org/01tgmhj36","country_code":"GB","type":"education","lineage":["https://openalex.org/I73417466"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Sumukh Deshpande","raw_affiliation_strings":["School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom"],"affiliations":[{"raw_affiliation_string":"School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom","institution_ids":["https://openalex.org/I73417466"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023111529","display_name":"James Shuttleworth","orcid":"https://orcid.org/0000-0003-4345-9412"},"institutions":[{"id":"https://openalex.org/I73417466","display_name":"Coventry University","ror":"https://ror.org/01tgmhj36","country_code":"GB","type":"education","lineage":["https://openalex.org/I73417466"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"James Shuttleworth","raw_affiliation_strings":["School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom"],"affiliations":[{"raw_affiliation_string":"School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom","institution_ids":["https://openalex.org/I73417466"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029157661","display_name":"Jianhua Yang","orcid":"https://orcid.org/0000-0003-3863-2786"},"institutions":[{"id":"https://openalex.org/I73417466","display_name":"Coventry University","ror":"https://ror.org/01tgmhj36","country_code":"GB","type":"education","lineage":["https://openalex.org/I73417466"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Jianhua Yang","raw_affiliation_strings":["School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom"],"affiliations":[{"raw_affiliation_string":"School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom","institution_ids":["https://openalex.org/I73417466"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016775262","display_name":"Sandy Taramonli","orcid":"https://orcid.org/0000-0002-0751-7446"},"institutions":[{"id":"https://openalex.org/I73417466","display_name":"Coventry University","ror":"https://ror.org/01tgmhj36","country_code":"GB","type":"education","lineage":["https://openalex.org/I73417466"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Sandy Taramonli","raw_affiliation_strings":["School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom"],"affiliations":[{"raw_affiliation_string":"School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom","institution_ids":["https://openalex.org/I73417466"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052550722","display_name":"Matthew England","orcid":"https://orcid.org/0000-0001-5729-3420"},"institutions":[{"id":"https://openalex.org/I73417466","display_name":"Coventry University","ror":"https://ror.org/01tgmhj36","country_code":"GB","type":"education","lineage":["https://openalex.org/I73417466"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Matthew England","raw_affiliation_strings":["School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom"],"affiliations":[{"raw_affiliation_string":"School of Computing, Electronics and Mathematics, 1 Gulson Road Coventry University, Coventry, Warwickshire, CV1 2JH, United Kingdom","institution_ids":["https://openalex.org/I73417466"]}]}],"institution_assertions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5007684834"],"corresponding_institution_ids":["https://openalex.org/I73417466"],"apc_list":{"value":2610,"currency":"USD","value_usd":2610,"provenance":"doaj"},"apc_paid":null,"fwci":1.976,"has_fulltext":true,"fulltext_origin":"pdf","cited_by_count":32,"citation_normalized_percentile":{"value":0.999907,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":95},"biblio":{"volume":"105","issue":null,"first_page":"169","last_page":"181"},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9999,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9999,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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":0.9973,"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/T13220","display_name":"Plant and Fungal Interactions Research","score":0.988,"subfield":{"id":"https://openalex.org/subfields/1310","display_name":"Endocrinology"},"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/rna-seq","display_name":"RNA-Seq","score":0.42059726},{"id":"https://openalex.org/keywords/identification","display_name":"Identification","score":0.42056102}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6105632},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.57992417},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.52143973},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.50043154},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4751387},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.42059726},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.42056102},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.36186868},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.28543788},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27406},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1936903},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.19091958},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1037122},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.08253837},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018749","descriptor_name":"RNA, Plant","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010944","descriptor_name":"Plants","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018749","descriptor_name":"RNA, Plant","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":false},{"descriptor_ui":"D018749","descriptor_name":"RNA, Plant","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":7,"locations":[{"is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.compbiomed.2018.12.014","pdf_url":null,"source":{"id":"https://openalex.org/S44278595","display_name":"Computers in Biology and Medicine","issn_l":"0010-4825","issn":["0010-4825","1879-0534"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},{"is_oa":true,"landing_page_url":"https://arxiv.org/abs/1902.05064","pdf_url":"https://arxiv.org/pdf/1902.05064","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":["Cornell University"],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false},{"is_oa":true,"landing_page_url":"https://orca.cardiff.ac.uk/id/eprint/118951/1/PLIT-manuscript-clean%20version.pdf","pdf_url":"https://orca.cardiff.ac.uk/id/eprint/118951/1/PLIT-manuscript-clean%20version.pdf","source":{"id":"https://openalex.org/S4306401195","display_name":"ORCA Online Research @Cardiff (Cardiff University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79510175","host_organization_name":"Cardiff University","host_organization_lineage":["https://openalex.org/I79510175"],"host_organization_lineage_names":["Cardiff University"],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"acceptedVersion","is_accepted":true,"is_published":false},{"is_oa":true,"landing_page_url":"https://pureportal.coventry.ac.uk/en/publications/plit-an-alignmentfree-computational-tool-for-identification-of-long-noncoding-rnas-in-plant-transcriptomic-datasets(aac3e5c6-0da6-45b3-ad20-99196fcb44f2).html","pdf_url":"https://pureportal.coventry.ac.uk/files/22342716/PLIT_manuscript_clean_version.pdf","source":{"id":"https://openalex.org/S4306402411","display_name":"Pure (Coventry University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I73417466","host_organization_name":"Coventry University","host_organization_lineage":["https://openalex.org/I73417466"],"host_organization_lineage_names":["Coventry University"],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false},{"is_oa":true,"landing_page_url":"https://pure.coventry.ac.uk/ws/files/22342716/PLIT_manuscript_clean_version.pdf","pdf_url":"https://pure.coventry.ac.uk/ws/files/22342716/PLIT_manuscript_clean_version.pdf","source":{"id":"https://openalex.org/S4306402411","display_name":"Pure (Coventry University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I73417466","host_organization_name":"Coventry University","host_organization_lineage":["https://openalex.org/I73417466"],"host_organization_lineage_names":["Coventry University"],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false},{"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30665012","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":["National Institutes of Health"],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},{"is_oa":false,"landing_page_url":"https://api.datacite.org/dois/10.48550/arxiv.1902.05064","pdf_url":null,"source":{"id":"https://openalex.org/S4393179698","display_name":"DataCite API","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210145204","host_organization_name":"DataCite","host_organization_lineage":["https://openalex.org/I4210145204"],"host_organization_lineage_names":["DataCite"],"type":"metadata"},"license":null,"license_id":null,"version":null}],"best_oa_location":{"is_oa":true,"landing_page_url":"https://arxiv.org/abs/1902.05064","pdf_url":"https://arxiv.org/pdf/1902.05064","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":["Cornell University"],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false},"sustainable_development_goals":[{"display_name":"Life on land","id":"https://metadata.un.org/sdg/15","score":0.74}],"grants":[{"funder":"https://openalex.org/F4320320663","funder_display_name":"Coventry University","award_id":null}],"datasets":[],"versions":["https://openalex.org/W2908437265"],"referenced_works_count":45,"referenced_works":["https://openalex.org/W1550695177","https://openalex.org/W1966947440","https://openalex.org/W1968185051","https://openalex.org/W1971737958","https://openalex.org/W1977790594","https://openalex.org/W1983096870","https://openalex.org/W1988419621","https://openalex.org/W1988590400","https://openalex.org/W1998422171","https://openalex.org/W2014915963","https://openalex.org/W2014948007","https://openalex.org/W2036897871","https://openalex.org/W2048194168","https://openalex.org/W2051043527","https://openalex.org/W2052503008","https://openalex.org/W2061548680","https://openalex.org/W2064598845","https://openalex.org/W2065001822","https://openalex.org/W2066464905","https://openalex.org/W2081530255","https://openalex.org/W2096465161","https://openalex.org/W2100002703","https://openalex.org/W2100561985","https://openalex.org/W2105360874","https://openalex.org/W2108206849","https://openalex.org/W2108234281","https://openalex.org/W2116041602","https://openalex.org/W2118023394","https://openalex.org/W2131105131","https://openalex.org/W2135046866","https://openalex.org/W2140729960","https://openalex.org/W2150747245","https://openalex.org/W2150803908","https://openalex.org/W2154053567","https://openalex.org/W2158503240","https://openalex.org/W2173732482","https://openalex.org/W2174181728","https://openalex.org/W2212260088","https://openalex.org/W2501872261","https://openalex.org/W2529308621","https://openalex.org/W2615786037","https://openalex.org/W2731142262","https://openalex.org/W4244894666","https://openalex.org/W4250359879","https://openalex.org/W4299599819"],"related_works":["https://openalex.org/W4394365953","https://openalex.org/W4394359997","https://openalex.org/W4362530193","https://openalex.org/W4362530184","https://openalex.org/W4362511922","https://openalex.org/W4362511917","https://openalex.org/W4362511652","https://openalex.org/W4362485688","https://openalex.org/W4362485661","https://openalex.org/W2904597490"],"abstract_inverted_index":null,"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W2908437265","counts_by_year":[{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":9},{"year":2019,"cited_by_count":4}],"updated_date":"2025-01-08T19:05:03.948674","created_date":"2019-01-11"}