{"id":"https://openalex.org/W2745714361","doi":"https://doi.org/10.1093/bioinformatics/bty658","title":"MR4Cancer: a web server prioritizing master regulators for cancer","display_name":"MR4Cancer: a web server prioritizing master regulators for cancer","publication_year":2018,"publication_date":"2018-07-20","ids":{"openalex":"https://openalex.org/W2745714361","doi":"https://doi.org/10.1093/bioinformatics/bty658","mag":"2745714361","pmid":"https://pubmed.ncbi.nlm.nih.gov/30052770"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty658","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty658","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/A5070268010","display_name":"Beibei Ru","orcid":"https://orcid.org/0000-0003-3897-7733"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Beibei Ru","raw_affiliation_strings":["School of Biological Sciences, The University of Hong Kong, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, The University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045646689","display_name":"Yin Tong","orcid":"https://orcid.org/0000-0001-6521-1915"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Yin Tong","raw_affiliation_strings":["School of Biological Sciences, The University of Hong Kong, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, The University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5060286751","display_name":"Jiangwen Zhang","orcid":"https://orcid.org/0000-0002-2911-8446"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":true,"raw_author_name":"Jiangwen Zhang","raw_affiliation_strings":["School of Biological Sciences, The University of Hong Kong, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, The University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5060286751"],"corresponding_institution_ids":["https://openalex.org/I889458895"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":null,"fwci":0.2481,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.50948771,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"35","issue":"4","first_page":"636","last_page":"642"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9107000231742859,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9107000231742859,"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/T10885","display_name":"Gene expression and cancer classification","score":0.024700000882148743,"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/T11297","display_name":"Ferroptosis and cancer prognosis","score":0.013700000010430813,"subfield":{"id":"https://openalex.org/subfields/2740","display_name":"Pulmonary and Respiratory Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/regulon","display_name":"Regulon","score":0.937579870223999},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4876221716403961},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.4779510498046875},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.4356735944747925},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3994078040122986},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.39584827423095703},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.3345677852630615},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2328713834285736},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1712591052055359},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.11844325065612793},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.07277175784111023}],"concepts":[{"id":"https://openalex.org/C62361671","wikidata":"https://www.wikidata.org/wiki/Q1754612","display_name":"Regulon","level":4,"score":0.937579870223999},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4876221716403961},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.4779510498046875},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.4356735944747925},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3994078040122986},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.39584827423095703},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.3345677852630615},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2328713834285736},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1712591052055359},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.11844325065612793},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.07277175784111023},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018085","descriptor_name":"Regulon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018085","descriptor_name":"Regulon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018085","descriptor_name":"Regulon","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bty658","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty658","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:30052770","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30052770","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":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":50,"referenced_works":["https://openalex.org/W1851611944","https://openalex.org/W1857035178","https://openalex.org/W1878684234","https://openalex.org/W1967591985","https://openalex.org/W1985308729","https://openalex.org/W1989277387","https://openalex.org/W2000672459","https://openalex.org/W2009720434","https://openalex.org/W2033430197","https://openalex.org/W2042426245","https://openalex.org/W2043274355","https://openalex.org/W2060501224","https://openalex.org/W2077128508","https://openalex.org/W2096766502","https://openalex.org/W2099887488","https://openalex.org/W2103017472","https://openalex.org/W2103689264","https://openalex.org/W2105031411","https://openalex.org/W2110265246","https://openalex.org/W2113942802","https://openalex.org/W2118258530","https://openalex.org/W2130410032","https://openalex.org/W2137526110","https://openalex.org/W2140952049","https://openalex.org/W2141224543","https://openalex.org/W2146512944","https://openalex.org/W2158485828","https://openalex.org/W2159707944","https://openalex.org/W2164298117","https://openalex.org/W2169950095","https://openalex.org/W2198703760","https://openalex.org/W2214074259","https://openalex.org/W2263948230","https://openalex.org/W2342019990","https://openalex.org/W2345356016","https://openalex.org/W2460139914","https://openalex.org/W2471249441","https://openalex.org/W2472255748","https://openalex.org/W2559588208","https://openalex.org/W2566656214","https://openalex.org/W2584230628","https://openalex.org/W2593741942","https://openalex.org/W2606064299","https://openalex.org/W2611696724","https://openalex.org/W2763840697","https://openalex.org/W2772692099","https://openalex.org/W2805223567","https://openalex.org/W2918086501","https://openalex.org/W4242404314","https://openalex.org/W6685074798"],"related_works":["https://openalex.org/W61127607","https://openalex.org/W1984136937","https://openalex.org/W1786268878","https://openalex.org/W2794893700","https://openalex.org/W1930517486","https://openalex.org/W4296449001","https://openalex.org/W2144861832","https://openalex.org/W2040814006","https://openalex.org/W4223441796","https://openalex.org/W2115260093"],"abstract_inverted_index":{"MOTIVATION:":[0],"During":[1],"cancer":[2,15,41,107],"stage":[3],"transition,":[4],"a":[5,86,126,142],"master":[6],"regulator":[7],"(MR)":[8],"refers":[9],"to":[10,30,52,67,88,136,183,206],"the":[11,21,78,131,149,171,185,204,216,221],"key":[12,54],"gene":[13,59,151],"controlling":[14],"initiation":[16],"and":[17,43,45,116,138,176,199,210,229,240],"progression":[18],"by":[19,109,167],"orchestrating":[20],"associated":[22],"target":[23],"genes":[24],"(termed":[25],"as":[26,37],"its":[27],"regulon).":[28],"Due":[29],"their":[31],"inherent":[32],"importance,":[33],"MRs":[34,55,140,166],"can":[35,75,201],"serve":[36],"critical":[38],"biomarkers":[39],"for":[40,96,105,196,213],"diagnosis":[42],"prognosis,":[44],"therapeutic":[46,241],"targets.":[47],"However,":[48],"it":[49],"is":[50,84],"challenging":[51],"infer":[53],"that":[56],"might":[57],"explain":[58],"expression":[60,73,158],"profile":[61,159],"changes":[62],"between":[63],"two":[64,161],"groups":[65],"due":[66],"lack":[68],"of":[69,80,93,145,187,223],"context-specific":[70],"regulons,":[71],"whose":[72],"level":[74],"collectively":[76],"reflect":[77],"activity":[79],"likely":[81,188],"MRs.":[82,189],"There":[83],"also":[85,181],"need":[87],"design":[89],"an":[90],"easy-to-use":[91],"tool":[92,232],"MR":[94],"identification":[95],"research":[97],"community.":[98],"RESULTS:":[99],"First,":[100],"we":[101],"generated":[102],"cancer-specific":[103],"regulons":[104,119,132],"26":[106],"types":[108],"analyzing":[110],"high-throughput":[111],"omics":[112],"data":[113,250],"from":[114,120],"TCGA,":[115],"extracted":[117],"noncancer-specific":[118],"public":[121],"databases.":[122],"We":[123,225],"subsequently":[124],"developed":[125],"web":[127,231],"server":[128],"MR4Cancer,":[129],"integrating":[130],"with":[133,160],"statistical":[134],"inference":[135],"identify":[137],"prioritize":[139],"driving":[141],"phenotypic":[143],"divergence":[144],"interest.":[146],"Based":[147],"on":[148],"input":[150],"list":[152],"(e.g.":[153],"differentially":[154],"expressed":[155],"genes)":[156],"or":[157],"groups,":[162],"MR4Cancer":[163,191],"outputs":[164],"ranked":[165],"enrichment":[168],"testing":[169],"against":[170],"predefined":[172],"regulons.":[173],"Gene":[174],"Ontology":[175],"canonical":[177],"pathway":[178],"analyses":[179],"are":[180,251],"conducted":[182],"elucidate":[184],"function":[186],"Moreover,":[190],"provides":[192],"dynamic":[193],"network":[194,205],"visualization":[195],"MR-target":[197],"relations,":[198],"users":[200],"interactively":[202],"interrogate":[203],"produce":[207],"new":[208],"hypotheses":[209],"high-quality":[211],"figures":[212],"publication.":[214],"Finally,":[215],"presented":[217],"case":[218],"studies":[219],"highlighted":[220],"performance":[222],"MR4Cancer.":[224],"expect":[226],"this":[227],"user-friendly":[228],"powerful":[230],"will":[233],"provide":[234],"researchers":[235],"novel":[236],"insights":[237],"into":[238],"tumorigenesis":[239],"intervention.":[242],"AVAILABILITY":[243],"AND":[244],"IMPLEMENTATION:":[245],"http://cis.hku.hk/MR4Cancer.":[246],"SUPPLEMENTARY":[247],"INFORMATION:":[248],"Supplementary":[249],"available":[252],"at":[253],"Bioinformatics":[254],"online.":[255]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2018,"cited_by_count":2}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
