{"id":"https://openalex.org/W2515920217","doi":"https://doi.org/10.1093/bioinformatics/btw590","title":"TRI_tool: a web-tool for prediction of protein\u2013protein interactions in human transcriptional regulation","display_name":"TRI_tool: a web-tool for prediction of protein\u2013protein interactions in human transcriptional regulation","publication_year":2016,"publication_date":"2016-09-07","ids":{"openalex":"https://openalex.org/W2515920217","doi":"https://doi.org/10.1093/bioinformatics/btw590","mag":"2515920217","pmid":"https://pubmed.ncbi.nlm.nih.gov/27605104"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw590","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw590","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/2/289/25142899/btw590.pdf","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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/2/289/25142899/btw590.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048731768","display_name":"Vladimir Perovi\u0107","orcid":"https://orcid.org/0000-0002-3700-6452"},"institutions":[{"id":"https://openalex.org/I4068193","display_name":"University of Belgrade","ror":"https://ror.org/02qsmb048","country_code":"RS","type":"education","lineage":["https://openalex.org/I4068193"]}],"countries":["RS"],"is_corresponding":false,"raw_author_name":"Vladimir Perovic","raw_affiliation_strings":["Centre for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia","institution_ids":["https://openalex.org/I4068193"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071478430","display_name":"Neven \u0160umonja","orcid":"https://orcid.org/0000-0002-4514-701X"},"institutions":[{"id":"https://openalex.org/I4068193","display_name":"University of Belgrade","ror":"https://ror.org/02qsmb048","country_code":"RS","type":"education","lineage":["https://openalex.org/I4068193"]}],"countries":["RS"],"is_corresponding":false,"raw_author_name":"Neven Sumonja","raw_affiliation_strings":["Centre for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia","institution_ids":["https://openalex.org/I4068193"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044798561","display_name":"Branislava Gemovi\u0107","orcid":"https://orcid.org/0000-0002-8987-020X"},"institutions":[{"id":"https://openalex.org/I4068193","display_name":"University of Belgrade","ror":"https://ror.org/02qsmb048","country_code":"RS","type":"education","lineage":["https://openalex.org/I4068193"]}],"countries":["RS"],"is_corresponding":false,"raw_author_name":"Branislava Gemovic","raw_affiliation_strings":["Centre for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia","institution_ids":["https://openalex.org/I4068193"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077626457","display_name":"Eneda Toska","orcid":"https://orcid.org/0000-0002-8974-9792"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eneda Toska","raw_affiliation_strings":["Department of Biological Sciences, University at Buffalo, Buffalo, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, University at Buffalo, Buffalo, NY, USA","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025733630","display_name":"Stefan G. E. Roberts","orcid":"https://orcid.org/0000-0002-7535-6365"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stefan G Roberts","raw_affiliation_strings":["Department of Biological Sciences, University at Buffalo, Buffalo, NY, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, University at Buffalo, Buffalo, NY, USA","institution_ids":["https://openalex.org/I63190737"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013666961","display_name":"Nevena Veljkovi\u0107","orcid":"https://orcid.org/0000-0001-6562-5800"},"institutions":[{"id":"https://openalex.org/I4068193","display_name":"University of Belgrade","ror":"https://ror.org/02qsmb048","country_code":"RS","type":"education","lineage":["https://openalex.org/I4068193"]}],"countries":["RS"],"is_corresponding":true,"raw_author_name":"Nevena Veljkovic","raw_affiliation_strings":["Centre for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Multidisciplinary Research, Institute of Nuclear Sciences Vinca, University of Belgrade, Belgrade, Serbia","institution_ids":["https://openalex.org/I4068193"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5013666961"],"corresponding_institution_ids":["https://openalex.org/I4068193"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.0251,"has_fulltext":false,"cited_by_count":18,"citation_normalized_percentile":{"value":0.78476393,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"33","issue":"2","first_page":"289","last_page":"291"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.8194000124931335,"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":0.8194000124931335,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.05510000139474869,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.02879999950528145,"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/vinca","display_name":"Vinca","score":0.7006064057350159},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5805490016937256},{"id":"https://openalex.org/keywords/web-site","display_name":"Web site","score":0.48878213763237},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.43964070081710815},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.43481069803237915},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.333159476518631},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2113298773765564},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.19388502836227417},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.18149074912071228},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11383572220802307}],"concepts":[{"id":"https://openalex.org/C2777096885","wikidata":"https://www.wikidata.org/wiki/Q220925","display_name":"Vinca","level":2,"score":0.7006064057350159},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5805490016937256},{"id":"https://openalex.org/C2984519610","wikidata":"https://www.wikidata.org/wiki/Q35127","display_name":"Web site","level":3,"score":0.48878213763237},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.43964070081710815},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.43481069803237915},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.333159476518631},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2113298773765564},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.19388502836227417},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.18149074912071228},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11383572220802307},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/btw590","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw590","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/2/289/25142899/btw590.pdf","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:27605104","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27605104","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},{"id":"pmh:oai:europepmc.org:5254067","is_oa":false,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6276898","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:33/2/289","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/33/2/289","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"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"},{"id":"pmh:oai:pubmedcentral.nih.gov:6276898","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6276898","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:vinar.vin.bg.ac.rs:123456789/1468","is_oa":false,"landing_page_url":"https://vinar.vin.bg.ac.rs/handle/123456789/1468","pdf_url":null,"source":{"id":"https://openalex.org/S4306402108","display_name":"VinaR (Institute of Nuclear Sciences \"Vin\u010da\")","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210101313","host_organization_name":"University Hospital Center Dr Dragi\u0161a Mi\u0161ovi\u0107","host_organization_lineage":["https://openalex.org/I4210101313"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw590","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw590","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/2/289/25142899/btw590.pdf","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"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3691207061","display_name":null,"funder_award_id":"R01 GM098609","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G6056156367","display_name":null,"funder_award_id":"ON173001","funder_id":"https://openalex.org/F4320322729","funder_display_name":"Ministarstvo Prosvete, Nauke i Tehnolo\u0161kog Razvoja"}],"funders":[{"id":"https://openalex.org/F4320322729","display_name":"Ministarstvo Prosvete, Nauke i Tehnolo\u0161kog Razvoja","ror":"https://ror.org/01znas443"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320338210","display_name":"Barts Cancer Institute","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":7,"referenced_works":["https://openalex.org/W1982267716","https://openalex.org/W2014702305","https://openalex.org/W2018631360","https://openalex.org/W2145957695","https://openalex.org/W2150452800","https://openalex.org/W2152705149","https://openalex.org/W2170525533"],"related_works":["https://openalex.org/W174472484","https://openalex.org/W3098069755","https://openalex.org/W4388085359","https://openalex.org/W322740912","https://openalex.org/W349124601","https://openalex.org/W2884034469","https://openalex.org/W4237371440","https://openalex.org/W2730946648","https://openalex.org/W4299333187","https://openalex.org/W3152416543"],"abstract_inverted_index":{"The":[0,47],"TRI_tool,":[1],"a":[2],"sequence-based":[3],"web":[4],"tool":[5],"for":[6,18],"prediction":[7],"of":[8,27],"protein":[9],"interactions":[10,57],"in":[11],"the":[12,25,38],"human":[13,42],"transcriptional":[14],"regulation,":[15],"is":[16,49],"intended":[17],"biomedical":[19],"investigators":[20],"who":[21],"work":[22],"on":[23,40],"understanding":[24],"regulation":[26],"gene":[28],"expression.":[29],"It":[30],"has":[31],"an":[32],"improved":[33],"predictive":[34],"performance":[35],"due":[36],"to":[37,51,54,63],"training":[39],"updated,":[41],"specific,":[43],"experimentally":[44],"validated":[45],"datasets.":[46],"TRI_tool":[48],"designed":[50],"test":[52],"up":[53],"100":[55],"potential":[56],"with":[58],"no":[59],"time":[60],"delay":[61],"and":[62,67],"report":[64],"both":[65],"probabilities":[66],"binarized":[68],"predictions.":[69],"AVAILABILITY":[70],"AND":[71],"IMPLEMENTATION:":[72],"http://www.vin.bg.ac.rs/180/tools/tfpred.php":[73],"CONTACT:":[74],"vladaper@vinca.rs;":[75],"nevenav@vinca.rsSupplementary":[76],"information:":[77],"Supplementary":[78],"data":[79],"are":[80],"available":[81],"at":[82],"Bioinformatics":[83],"online.":[84]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":4}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}
