{"id":"https://openalex.org/W2990427224","doi":"https://doi.org/10.1093/bioinformatics/btz886","title":"Designing a general method for predicting the regulatory relationships between long noncoding RNAs and protein-coding genes based on multi-omics characteristics","display_name":"Designing a general method for predicting the regulatory relationships between long noncoding RNAs and protein-coding genes based on multi-omics characteristics","publication_year":2019,"publication_date":"2019-11-26","ids":{"openalex":"https://openalex.org/W2990427224","doi":"https://doi.org/10.1093/bioinformatics/btz886","mag":"2990427224","pmid":"https://pubmed.ncbi.nlm.nih.gov/31778157"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz886","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz886","pdf_url":null,"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":null,"license_id":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100326584","display_name":"Yuwei Zhang","orcid":"https://orcid.org/0000-0002-8395-3020"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuwei Zhang","raw_affiliation_strings":["Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001824767","display_name":"Tianfei Yi","orcid":null},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tianfei Yi","raw_affiliation_strings":["Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040168179","display_name":"Huihui Ji","orcid":null},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Huihui Ji","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080247479","display_name":"Guofang Zhao","orcid":null},"institutions":[{"id":"https://openalex.org/I4210165038","display_name":"University of Chinese Academy of Sciences","ror":"https://ror.org/05qbk4x57","country_code":"CN","type":"education","lineage":["https://openalex.org/I19820366","https://openalex.org/I4210165038"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guofang Zhao","raw_affiliation_strings":["HwaMei Hospital, University of Chinese Academy of Science , Ningbo, Zhejiang 315010, China"],"affiliations":[{"raw_affiliation_string":"HwaMei Hospital, University of Chinese Academy of Science , Ningbo, Zhejiang 315010, China","institution_ids":["https://openalex.org/I4210165038"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100646467","display_name":"Yang Xi","orcid":"https://orcid.org/0000-0003-4241-5557"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Xi","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101487154","display_name":"Changzheng Dong","orcid":"https://orcid.org/0000-0002-5271-0405"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Changzheng Dong","raw_affiliation_strings":["Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5107410504","display_name":"L\u00edna Zhang","orcid":"https://orcid.org/0000-0003-3671-8690"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lina Zhang","raw_affiliation_strings":["Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100330108","display_name":"Xiaohong Zhang","orcid":"https://orcid.org/0000-0002-1737-1225"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaohong Zhang","raw_affiliation_strings":["Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030976817","display_name":"Jinshun Zhao","orcid":"https://orcid.org/0000-0001-6012-1611"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jinshun Zhao","raw_affiliation_strings":["Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5102004889","display_name":"Qi Liao","orcid":"https://orcid.org/0000-0001-6796-104X"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Qi Liao","raw_affiliation_strings":["Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China"],"affiliations":[{"raw_affiliation_string":"Department of Preventative Medicine, Zhejiang Key Laboratory of Pathophysiology, Ningbo University School of Medicine , Ningbo, Zhejiang 315211, China","institution_ids":["https://openalex.org/I109935558"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5102004889"],"corresponding_institution_ids":["https://openalex.org/I109935558"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.3061,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.53068095,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":96},"biblio":{"volume":"36","issue":"7","first_page":"2025","last_page":"2032"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":1.0,"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":1.0,"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/T10604","display_name":"RNA Research and Splicing","score":0.9884999990463257,"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/T11482","display_name":"RNA modifications and cancer","score":0.9876000285148621,"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/coding","display_name":"Coding (social sciences)","score":0.5879601836204529},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.570701003074646},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5255795121192932},{"id":"https://openalex.org/keywords/long-non-coding-rna","display_name":"Long non-coding RNA","score":0.5239363312721252},{"id":"https://openalex.org/keywords/hotair","display_name":"HOTAIR","score":0.484881728887558},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"Non-coding RNA","score":0.4564197063446045},{"id":"https://openalex.org/keywords/cross-validation","display_name":"Cross-validation","score":0.45563003420829773},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.4197938144207001},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.41410592198371887},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.41343435645103455},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.3627427816390991},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.29599207639694214},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2595198452472687},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1554323136806488},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.10151660442352295}],"concepts":[{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.5879601836204529},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.570701003074646},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5255795121192932},{"id":"https://openalex.org/C62203573","wikidata":"https://www.wikidata.org/wiki/Q15087973","display_name":"Long non-coding RNA","level":4,"score":0.5239363312721252},{"id":"https://openalex.org/C2781128886","wikidata":"https://www.wikidata.org/wiki/Q18062498","display_name":"HOTAIR","level":5,"score":0.484881728887558},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.4564197063446045},{"id":"https://openalex.org/C27181475","wikidata":"https://www.wikidata.org/wiki/Q541014","display_name":"Cross-validation","level":2,"score":0.45563003420829773},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.4197938144207001},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.41410592198371887},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.41343435645103455},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.3627427816390991},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.29599207639694214},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2595198452472687},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1554323136806488},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.10151660442352295}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btz886","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz886","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31778157","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31778157","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}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Responsible consumption and production","id":"https://metadata.un.org/sdg/12","score":0.41999998688697815}],"awards":[{"id":"https://openalex.org/G522356886","display_name":null,"funder_award_id":"201812","funder_id":"https://openalex.org/F4320329759","funder_display_name":"Zhejiang Key Laboratory of Pathophysiology"},{"id":"https://openalex.org/G5904485574","display_name":null,"funder_award_id":"31970630","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G638912262","display_name":null,"funder_award_id":"2017A610154","funder_id":"https://openalex.org/F4320332587","funder_display_name":"Natural Science Foundation of Ningbo"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320329759","display_name":"Zhejiang Key Laboratory of Pathophysiology","ror":null},{"id":"https://openalex.org/F4320332587","display_name":"Natural Science Foundation of Ningbo","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320337015","display_name":"K. C. Wong Magna Fund in Ningbo University","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":39,"referenced_works":["https://openalex.org/W2001554877","https://openalex.org/W2006617902","https://openalex.org/W2041509376","https://openalex.org/W2070571588","https://openalex.org/W2072394638","https://openalex.org/W2084160423","https://openalex.org/W2094292925","https://openalex.org/W2096465161","https://openalex.org/W2103441770","https://openalex.org/W2117977572","https://openalex.org/W2118258530","https://openalex.org/W2130687298","https://openalex.org/W2135398049","https://openalex.org/W2142019735","https://openalex.org/W2145931730","https://openalex.org/W2154139219","https://openalex.org/W2154624139","https://openalex.org/W2156125289","https://openalex.org/W2169447118","https://openalex.org/W2171808845","https://openalex.org/W2180674495","https://openalex.org/W2315439218","https://openalex.org/W2336850185","https://openalex.org/W2468115210","https://openalex.org/W2528138045","https://openalex.org/W2544405043","https://openalex.org/W2580790464","https://openalex.org/W2609607459","https://openalex.org/W2610159395","https://openalex.org/W2758387477","https://openalex.org/W2767216588","https://openalex.org/W2769591387","https://openalex.org/W2787788280","https://openalex.org/W2889919103","https://openalex.org/W2898149680","https://openalex.org/W4233120011","https://openalex.org/W4236459334","https://openalex.org/W6744606860","https://openalex.org/W6755336689"],"related_works":["https://openalex.org/W4379093959","https://openalex.org/W3026602564","https://openalex.org/W2969272350","https://openalex.org/W2066513103","https://openalex.org/W3121184499","https://openalex.org/W2398024913","https://openalex.org/W2945271012","https://openalex.org/W2981158894","https://openalex.org/W2911467702","https://openalex.org/W4361840032"],"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":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}