{"id":"https://openalex.org/W2083389316","doi":"https://doi.org/10.1109/tsmcc.2012.2186801","title":"Revealing miRNA Regulation and miRNA Target Prediction Using Constraint-Based Learning","display_name":"Revealing miRNA Regulation and miRNA Target Prediction Using Constraint-Based Learning","publication_year":2012,"publication_date":"2012-11-01","ids":{"openalex":"https://openalex.org/W2083389316","doi":"https://doi.org/10.1109/tsmcc.2012.2186801","mag":"2083389316"},"language":"en","primary_location":{"id":"doi:10.1109/tsmcc.2012.2186801","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tsmcc.2012.2186801","pdf_url":null,"source":{"id":"https://openalex.org/S4210227557","display_name":"IEEE Transactions on Systems Man and Cybernetics Part C (Applications and Reviews)","issn_l":"1094-6977","issn":["1094-6977","1558-2442"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Systems, Man, and Cybernetics, Part C (Applications and Reviews)","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"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/A5032201078","display_name":"Mohammed Alshalalfa","orcid":"https://orcid.org/0000-0001-8405-3035"},"institutions":[{"id":"https://openalex.org/I168635309","display_name":"University of Calgary","ror":"https://ror.org/03yjb2x39","country_code":"CA","type":"education","lineage":["https://openalex.org/I168635309"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Mohammed Alshalalfa","raw_affiliation_strings":["Department of Computer Science, University of Calgary, Calgary, AB, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Calgary, Calgary, AB, Canada","institution_ids":["https://openalex.org/I168635309"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034886708","display_name":"Mehmet Tan","orcid":"https://orcid.org/0000-0002-1741-0570"},"institutions":[{"id":"https://openalex.org/I13236232","display_name":"TOBB University of Economics and Technology","ror":"https://ror.org/03ewx7v96","country_code":"TR","type":"education","lineage":["https://openalex.org/I13236232"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Mehmet Tan","raw_affiliation_strings":["Department ofComputer Engineering, TOBB University of Economics and Technology, Ankara, Turkey"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department ofComputer Engineering, TOBB University of Economics and Technology, Ankara, Turkey","institution_ids":["https://openalex.org/I13236232"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015733534","display_name":"Ghada Naji","orcid":null},"institutions":[{"id":"https://openalex.org/I160368002","display_name":"Lebanese University","ror":"https://ror.org/05x6qnc69","country_code":"LB","type":"education","lineage":["https://openalex.org/I160368002"]}],"countries":["LB"],"is_corresponding":false,"raw_author_name":"Ghada Naji","raw_affiliation_strings":["Department of Biology, Lebanese University, Tripoli, Lebanon"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Lebanese University, Tripoli, Lebanon","institution_ids":["https://openalex.org/I160368002"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066265052","display_name":"Reda Alhajj","orcid":"https://orcid.org/0000-0001-6657-9738"},"institutions":[{"id":"https://openalex.org/I168635309","display_name":"University of Calgary","ror":"https://ror.org/03yjb2x39","country_code":"CA","type":"education","lineage":["https://openalex.org/I168635309"]},{"id":"https://openalex.org/I904090387","display_name":"Global University","ror":"https://ror.org/04frhb927","country_code":"LB","type":"education","lineage":["https://openalex.org/I904090387"]}],"countries":["CA","LB"],"is_corresponding":false,"raw_author_name":"Reda Alhajj","raw_affiliation_strings":["Department of Computer Science, Global University, Beirut, Lebanon","Department of Computer Science, University of Calgary, Calgary, AB, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Global University, Beirut, Lebanon","institution_ids":["https://openalex.org/I904090387"]},{"raw_affiliation_string":"Department of Computer Science, University of Calgary, Calgary, AB, Canada","institution_ids":["https://openalex.org/I168635309"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016249943","display_name":"Faruk Polat","orcid":"https://orcid.org/0000-0003-0509-9153"},"institutions":[{"id":"https://openalex.org/I201799495","display_name":"Middle East Technical University","ror":"https://ror.org/014weej12","country_code":"TR","type":"education","lineage":["https://openalex.org/I201799495"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Faruk Polat","raw_affiliation_strings":["Department of Computer Engineering, Middle East Technical University, Ankara, Turkey"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Middle East Technical University, Ankara, Turkey","institution_ids":["https://openalex.org/I201799495"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5020310155","display_name":"Jon Rokne","orcid":"https://orcid.org/0000-0002-3439-2917"},"institutions":[{"id":"https://openalex.org/I168635309","display_name":"University of Calgary","ror":"https://ror.org/03yjb2x39","country_code":"CA","type":"education","lineage":["https://openalex.org/I168635309"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Jon Rokne","raw_affiliation_strings":["Department of Computer Science, University of Calgary, Calgary, AB, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Calgary, Calgary, AB, Canada","institution_ids":["https://openalex.org/I168635309"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.11790541,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"42","issue":"6","first_page":"1354","last_page":"1364"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":0.9994000196456909,"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":0.9994000196456909,"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":0.9991000294685364,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.995199978351593,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/constraint","display_name":"Constraint (computer-aided design)","score":0.6524568200111389},{"id":"https://openalex.org/keywords/microrna","display_name":"microRNA","score":0.6346691250801086},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5820180773735046},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.5440536737442017},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4688124656677246},{"id":"https://openalex.org/keywords/heterogeneous-network","display_name":"Heterogeneous network","score":0.44569846987724304},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3983163833618164},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3897722065448761},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.31933796405792236},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30968672037124634},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.27254289388656616},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12099289894104004},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.11971542239189148},{"id":"https://openalex.org/keywords/wireless-network","display_name":"Wireless network","score":0.0930083692073822},{"id":"https://openalex.org/keywords/wireless","display_name":"Wireless","score":0.07091358304023743}],"concepts":[{"id":"https://openalex.org/C2776036281","wikidata":"https://www.wikidata.org/wiki/Q48769818","display_name":"Constraint (computer-aided design)","level":2,"score":0.6524568200111389},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.6346691250801086},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5820180773735046},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.5440536737442017},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4688124656677246},{"id":"https://openalex.org/C158207573","wikidata":"https://www.wikidata.org/wiki/Q5747224","display_name":"Heterogeneous network","level":4,"score":0.44569846987724304},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3983163833618164},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3897722065448761},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.31933796405792236},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30968672037124634},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.27254289388656616},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12099289894104004},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.11971542239189148},{"id":"https://openalex.org/C108037233","wikidata":"https://www.wikidata.org/wiki/Q11375","display_name":"Wireless network","level":3,"score":0.0930083692073822},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.07091358304023743},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/tsmcc.2012.2186801","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tsmcc.2012.2186801","pdf_url":null,"source":{"id":"https://openalex.org/S4210227557","display_name":"IEEE Transactions on Systems Man and Cybernetics Part C (Applications and Reviews)","issn_l":"1094-6977","issn":["1094-6977","1558-2442"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Systems, Man, and Cybernetics, Part C (Applications and Reviews)","raw_type":"journal-article"},{"id":"pmh:oai:open.metu.edu.tr:11511/48320","is_oa":false,"landing_page_url":"https://hdl.handle.net/11511/48320","pdf_url":null,"source":{"id":"https://openalex.org/S4306402495","display_name":"OpenMETU (Middle East Technical University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I201799495","host_organization_name":"Middle East Technical University","host_organization_lineage":["https://openalex.org/I201799495"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":44,"referenced_works":["https://openalex.org/W32204808","https://openalex.org/W1599207601","https://openalex.org/W1604827622","https://openalex.org/W1977768257","https://openalex.org/W1987065599","https://openalex.org/W1989590372","https://openalex.org/W1997474848","https://openalex.org/W1998767538","https://openalex.org/W2005101609","https://openalex.org/W2007795568","https://openalex.org/W2009156404","https://openalex.org/W2012332159","https://openalex.org/W2026570544","https://openalex.org/W2034595398","https://openalex.org/W2040008202","https://openalex.org/W2040411864","https://openalex.org/W2044832480","https://openalex.org/W2047455573","https://openalex.org/W2048270152","https://openalex.org/W2050869737","https://openalex.org/W2063328956","https://openalex.org/W2074248109","https://openalex.org/W2083381199","https://openalex.org/W2083687933","https://openalex.org/W2087339923","https://openalex.org/W2090219560","https://openalex.org/W2091934374","https://openalex.org/W2102819831","https://openalex.org/W2103983011","https://openalex.org/W2106120562","https://openalex.org/W2113390076","https://openalex.org/W2113445340","https://openalex.org/W2121820194","https://openalex.org/W2125631472","https://openalex.org/W2135068082","https://openalex.org/W2141792156","https://openalex.org/W2149385948","https://openalex.org/W2155874171","https://openalex.org/W2160913143","https://openalex.org/W2162330956","https://openalex.org/W2163199119","https://openalex.org/W2561025267","https://openalex.org/W4285719527","https://openalex.org/W4302423442"],"related_works":["https://openalex.org/W1927327903","https://openalex.org/W2737319532","https://openalex.org/W1544665982","https://openalex.org/W2062945643","https://openalex.org/W3151405604","https://openalex.org/W2022479666","https://openalex.org/W2565797512","https://openalex.org/W4241694095","https://openalex.org/W2330252996","https://openalex.org/W2050308539"],"abstract_inverted_index":{"The":[0,255,304],"past":[1],"decades":[2],"have":[3,137],"witnessed":[4],"advances":[5],"in":[6,32,59,113,116,159,295,322],"genomic":[7],"technology;":[8],"and":[9,70,96,127,293,329],"this":[10,120,172,244,323],"has":[11,72,306],"allowed":[12],"laboratories":[13],"to":[14,83,107,123,149,179,188,195,208,229,242,283,297,309,315],"generate":[15],"vast":[16],"amount":[17],"of":[18,28,41,48,54,80,111,142,153,167,199,213,262,269,290,312,331],"biological":[19],"data,":[20],"including":[21],"microarray":[22],"gene":[23,55,94],"expression":[24,95,98,288],"data.":[25],"Effective":[26],"analysis":[27],"the":[29,35,38,42,52,61,65,78,88,104,109,133,140,151,160,197,210,214,231,302,316,319,326,332],"data":[30,99],"helps":[31],"better":[33],"understanding":[34],"mechanisms":[36],"behind":[37],"complex":[39],"behavior":[40],"cell.":[43,62],"Actually,":[44],"a":[45,146,190,272,279],"huge":[46],"body":[47],"research":[49,89],"focuses":[50],"on":[51,226,252],"role":[53,110],"regulatory":[56],"networks":[57,264],"(GRNs)":[58],"controlling":[60],"However,":[63],"studying":[64],"heterogeneous":[66,200,215,234,267],"interactions":[67,232],"between":[68],"mRNA":[69,93,115,292],"miRNA":[71,97,112,125,285],"received":[73],"less":[74],"attention.":[75],"Fortunately,":[76],"revealing":[77],"targets":[79,126,286],"miRNAs":[81],"started":[82],"gain":[84],"some":[85],"consideration":[86],"from":[87,287],"community.":[90],"Further,":[91],"integrating":[92],"is":[100,106,260],"receiving":[101],"more":[102,191],"attention;":[103],"target":[105],"understand":[108],"regulating":[114],"different":[117,310],"cell":[118],"contexts;":[119],"could":[121],"lead":[122],"predicting":[124],"constructing":[128],"miRNA-mRNA":[129,237],"interaction":[130],"networks.":[131,254],"On":[132],"other":[134,206],"hand,":[135],"we":[136,174,217,277],"already":[138],"demonstrated":[139],"power":[141],"constraint-based":[143,182,219],"learning":[144,183,220,281],"as":[145],"promising":[147],"technique":[148],"learn":[150,196],"structure":[152,198],"GRN":[154],",":[155],"which":[156,222,250],"are":[157,240],"homogeneous":[158,253],"sense":[161],"that":[162],"they":[163],"contain":[164],"one":[165],"type":[166],"nodes,":[168],"namely,":[169,194,236],"genes.":[170],"In":[171,205],"study,":[173],"extend":[175],"our":[176,247],"previous":[177],"work":[178],"show":[180],"how":[181],"can":[184],"be":[185],"effectively":[186],"applied":[187,308],"tackle":[189],"challenging":[192],"problem,":[193],"networks,":[201,235],"like":[202],"mRNA-miRNA":[203],"network.":[204],"words,":[207],"build":[209],"whole":[211],"picture":[212],"interactions,":[216],"used":[218],"algorithms":[221],"usually":[223],"perform":[224],"well":[225],"sparse":[227],"graphs":[228],"predict":[230,284],"within":[233],"interactions.":[238,303],"We":[239],"able":[241],"achieve":[243],"by":[245],"extending":[246],"PCPDPr":[248],"algorithm,":[249],"works":[251],"extended":[256],"version":[257],"named":[258],"htrPCPDPr":[259],"capable":[261],"handling":[263],"connecting":[265],"two":[266],"sets":[268],"nodes":[270],"into":[271],"bipartite":[273],"graph.":[274],"This":[275],"way,":[276],"propose":[278],"new":[280],"mechanism":[282],"profiles":[289],"both":[291],"miRNA,":[294],"addition":[296],"sequence-based":[298],"prior":[299],"knowledge":[300],"about":[301],"method":[305],"been":[307],"set":[311],"genes":[313],"related":[314],"Alzheimer":[317],"disease;":[318],"results":[320],"reported":[321],"paper":[324],"demonstrate":[325],"novelty,":[327],"applicability,":[328],"effectiveness":[330],"proposed":[333],"approach.":[334]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}