{"id":"https://openalex.org/W2410060109","doi":"https://doi.org/10.1093/bib/bbw042","title":"Computational methods for identifying miRNA sponge interactions","display_name":"Computational methods for identifying miRNA sponge interactions","publication_year":2016,"publication_date":"2016-06-05","ids":{"openalex":"https://openalex.org/W2410060109","doi":"https://doi.org/10.1093/bib/bbw042","mag":"2410060109","pmid":"https://pubmed.ncbi.nlm.nih.gov/27273287"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbw042","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbw042","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"review","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/A5035846381","display_name":"Thuc Duy Le","orcid":"https://orcid.org/0000-0002-9732-4313"},"institutions":[{"id":"https://openalex.org/I170239107","display_name":"University of South Australia","ror":"https://ror.org/01p93h210","country_code":"AU","type":"education","lineage":["https://openalex.org/I170239107"]}],"countries":["AU"],"is_corresponding":true,"raw_author_name":"Thuc Duy Le","raw_affiliation_strings":["School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, 5095, Australia","School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, Australia"],"affiliations":[{"raw_affiliation_string":"School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, 5095, Australia","institution_ids":["https://openalex.org/I170239107"]},{"raw_affiliation_string":"School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, Australia","institution_ids":["https://openalex.org/I170239107"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100702169","display_name":"Junpeng Zhang","orcid":"https://orcid.org/0000-0001-6127-9701"},"institutions":[{"id":"https://openalex.org/I6593398","display_name":"Dali University","ror":"https://ror.org/02y7rck89","country_code":"CN","type":"education","lineage":["https://openalex.org/I6593398"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Junpeng Zhang","raw_affiliation_strings":["School of Engineering, Dali University, Dali, China"],"affiliations":[{"raw_affiliation_string":"School of Engineering, Dali University, Dali, China","institution_ids":["https://openalex.org/I6593398"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100383342","display_name":"Lin Liu","orcid":"https://orcid.org/0000-0003-2843-5738"},"institutions":[{"id":"https://openalex.org/I170239107","display_name":"University of South Australia","ror":"https://ror.org/01p93h210","country_code":"AU","type":"education","lineage":["https://openalex.org/I170239107"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Lin Liu","raw_affiliation_strings":["School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, 5095, Australia","School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, Australia"],"affiliations":[{"raw_affiliation_string":"School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, 5095, Australia","institution_ids":["https://openalex.org/I170239107"]},{"raw_affiliation_string":"School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, Australia","institution_ids":["https://openalex.org/I170239107"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012177739","display_name":"Jiuyong Li","orcid":"https://orcid.org/0000-0002-9023-1878"},"institutions":[{"id":"https://openalex.org/I170239107","display_name":"University of South Australia","ror":"https://ror.org/01p93h210","country_code":"AU","type":"education","lineage":["https://openalex.org/I170239107"]}],"countries":["AU"],"is_corresponding":true,"raw_author_name":"Jiuyong Li","raw_affiliation_strings":["School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, 5095, Australia","School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, Australia"],"affiliations":[{"raw_affiliation_string":"School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, 5095, Australia","institution_ids":["https://openalex.org/I170239107"]},{"raw_affiliation_string":"School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA, Australia","institution_ids":["https://openalex.org/I170239107"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5012177739","https://openalex.org/A5035846381"],"corresponding_institution_ids":["https://openalex.org/I170239107"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":5.9435,"has_fulltext":false,"cited_by_count":94,"citation_normalized_percentile":{"value":0.97047676,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"18","issue":"4","first_page":"bbw042","last_page":"bbw042"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":0.9998000264167786,"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/T10062","display_name":"MicroRNA in disease regulation","score":0.9998000264167786,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9991999864578247,"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":0.9979000091552734,"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/sponge","display_name":"Sponge","score":0.5834265947341919},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5446743965148926},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5112047791481018},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33300483226776123},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2699807286262512},{"id":"https://openalex.org/keywords/paleontology","display_name":"Paleontology","score":0.06992653012275696}],"concepts":[{"id":"https://openalex.org/C2778849931","wikidata":"https://www.wikidata.org/wiki/Q18960","display_name":"Sponge","level":2,"score":0.5834265947341919},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5446743965148926},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5112047791481018},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33300483226776123},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2699807286262512},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.06992653012275696}],"mesh":[{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001943","descriptor_name":"Breast Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbw042","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbw042","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:27273287","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27273287","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:urm_publish:9916149084201831","is_oa":false,"landing_page_url":"https://find.library.unisa.edu.au/discovery/fulldisplay/alma9916149084201831/61USOUTHAUS_INST:ROR","pdf_url":null,"source":{"id":"https://openalex.org/S4306402528","display_name":"UniSA Research Outputs Repository (University of South Australia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I170239107","host_organization_name":"University of South Australia","host_organization_lineage":["https://openalex.org/I170239107"],"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":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":75,"referenced_works":["https://openalex.org/W14098964","https://openalex.org/W144423133","https://openalex.org/W1556935306","https://openalex.org/W1648301895","https://openalex.org/W1965514608","https://openalex.org/W1966498224","https://openalex.org/W1971623350","https://openalex.org/W1977852043","https://openalex.org/W1992097204","https://openalex.org/W2000048706","https://openalex.org/W2004066250","https://openalex.org/W2004714113","https://openalex.org/W2006190082","https://openalex.org/W2006556963","https://openalex.org/W2009312009","https://openalex.org/W2009777681","https://openalex.org/W2017327650","https://openalex.org/W2017768662","https://openalex.org/W2037363723","https://openalex.org/W2037368980","https://openalex.org/W2040191060","https://openalex.org/W2044527070","https://openalex.org/W2048035044","https://openalex.org/W2048296798","https://openalex.org/W2049280733","https://openalex.org/W2050869737","https://openalex.org/W2054721257","https://openalex.org/W2058835062","https://openalex.org/W2059794606","https://openalex.org/W2064165694","https://openalex.org/W2069385510","https://openalex.org/W2070571588","https://openalex.org/W2079372953","https://openalex.org/W2080866509","https://openalex.org/W2080973766","https://openalex.org/W2083381199","https://openalex.org/W2086809547","https://openalex.org/W2096381177","https://openalex.org/W2096465161","https://openalex.org/W2097627545","https://openalex.org/W2102140136","https://openalex.org/W2104508998","https://openalex.org/W2105549148","https://openalex.org/W2106030955","https://openalex.org/W2108000084","https://openalex.org/W2109384743","https://openalex.org/W2113868616","https://openalex.org/W2117977572","https://openalex.org/W2119412782","https://openalex.org/W2120024428","https://openalex.org/W2122450025","https://openalex.org/W2123479813","https://openalex.org/W2128034264","https://openalex.org/W2128605063","https://openalex.org/W2128983843","https://openalex.org/W2130687298","https://openalex.org/W2133658633","https://openalex.org/W2134118500","https://openalex.org/W2135398049","https://openalex.org/W2137734450","https://openalex.org/W2143662314","https://openalex.org/W2145931730","https://openalex.org/W2146512944","https://openalex.org/W2149785901","https://openalex.org/W2150296976","https://openalex.org/W2150395782","https://openalex.org/W2162681307","https://openalex.org/W2164804796","https://openalex.org/W2171398108","https://openalex.org/W2174734928","https://openalex.org/W2280882096","https://openalex.org/W2302185643","https://openalex.org/W2330978860","https://openalex.org/W4237011200","https://openalex.org/W7074148658"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2015854251","https://openalex.org/W614364637","https://openalex.org/W2122538981","https://openalex.org/W2021188643","https://openalex.org/W2338797498","https://openalex.org/W4308250236","https://openalex.org/W2326616893","https://openalex.org/W2239222391","https://openalex.org/W2072187173"],"abstract_inverted_index":{"Recent":[0],"findings":[1],"show":[2],"that":[3,11,63],"coding":[4],"genes":[5],"are":[6,64],"not":[7],"the":[8,47,51,59,85,128,136,156,172,175,186],"only":[9],"targets":[10],"miRNAs":[12,30,62],"interact":[13],"with.":[14],"In":[15,93],"fact,":[16],"there":[17,106],"is":[18,165],"a":[19,55,152,159,168],"pool":[20],"of":[21,54,61,132,155,171,174],"different":[22],"RNAs":[23,38],"competing":[24,36],"with":[25,68,158],"each":[26,44],"other":[27,45,69],"to":[28,116,166,184],"attract":[29],"for":[31,66,101,112,139],"interactions,":[32],"thus":[33],"acting":[34],"as":[35,84,145],"endogenous":[37],"(ceRNAs).":[39],"The":[40,71],"ceRNAs":[41],"indirectly":[42],"regulate":[43],"via":[46],"titration":[48],"mechanism,":[49],"i.e.":[50,75],"increasing":[52],"concentration":[53],"ceRNA":[56,121],"will":[57],"decrease":[58],"number":[60],"available":[65,130],"interacting":[67],"targets.":[70],"cross-talks":[72],"between":[73],"ceRNAs,":[74],"their":[76],"interactions":[77,134,142,182],"mediated":[78],"by":[79],"miRNAs,":[80],"have":[81,99],"been":[82],"identified":[83],"drivers":[86],"in":[87,178],"many":[88],"disease":[89],"conditions,":[90],"including":[91],"cancers.":[92],"recent":[94],"years,":[95],"some":[96],"computational":[97,114,137,176],"methods":[98,115,138,157,177],"emerged":[100],"identifying":[102,140,179],"ceRNA-ceRNA":[103,133,141],"interactions.":[104],"However,":[105],"remain":[107],"great":[108],"challenges":[109],"and":[110,135,183],"opportunities":[111],"developing":[113],"provide":[117,167],"new":[118],"insights":[119],"into":[120],"regulatory":[122],"mechanisms.In":[123],"this":[124],"paper,":[125],"we":[126],"review":[127],"publically":[129],"databases":[131],"(also":[143],"known":[144],"miRNA":[146,180],"sponge":[147,181],"interactions).":[148],"We":[149],"also":[150],"conduct":[151],"comparison":[153],"study":[154],"breast":[160],"cancer":[161],"dataset.":[162],"Our":[163],"aim":[164],"current":[169],"snapshot":[170],"advances":[173],"discuss":[185],"remaining":[187],"challenges.":[188]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":11},{"year":2020,"cited_by_count":13},{"year":2019,"cited_by_count":14},{"year":2018,"cited_by_count":14},{"year":2017,"cited_by_count":15},{"year":2016,"cited_by_count":4}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2016-06-24T00:00:00"}
