{"id":"https://openalex.org/W4236971020","doi":"https://doi.org/10.1093/bioinformatics/btv081","title":"MIRA: mutual information-based reporter algorithm for metabolic networks","display_name":"MIRA: mutual information-based reporter algorithm for metabolic networks","publication_year":2015,"publication_date":"2015-03-10","ids":{"openalex":"https://openalex.org/W4236971020","doi":"https://doi.org/10.1093/bioinformatics/btv081"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv081","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv081","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/7/1160/50306333/bioinformatics_31_7_1160.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/31/7/1160/50306333/bioinformatics_31_7_1160.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5090836372","display_name":"A. Erc\u00fcment \u00c7i\u00e7ek","orcid":"https://orcid.org/0000-0001-8613-6619"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"A. Ercument Cicek","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077476842","display_name":"Kathryn Roeder","orcid":"https://orcid.org/0000-0002-8869-6254"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kathryn Roeder","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5016412404","display_name":"G\u00fcltekin \u00d6zsoyo\u011flu","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Gultekin Ozsoyoglu","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":{"value":3989,"currency":"USD","value_usd":3989},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.24479085,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"31","issue":"7","first_page":"1160","last_page":"1160"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9988999962806702,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9988999962806702,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9958000183105469,"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":0.9865999817848206,"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/computer-science","display_name":"Computer science","score":0.6888088583946228},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4418315291404724},{"id":"https://openalex.org/keywords/mutual-information","display_name":"Mutual information","score":0.42640021443367004},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2644158601760864}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6888088583946228},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4418315291404724},{"id":"https://openalex.org/C152139883","wikidata":"https://www.wikidata.org/wiki/Q252973","display_name":"Mutual information","level":2,"score":0.42640021443367004},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2644158601760864}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1093/bioinformatics/btv081","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv081","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/7/1160/50306333/bioinformatics_31_7_1160.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv081","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv081","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/7/1160/50306333/bioinformatics_31_7_1160.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4236971020.pdf","grobid_xml":"https://content.openalex.org/works/W4236971020.grobid-xml"},"referenced_works_count":2,"referenced_works":["https://openalex.org/W2028561804","https://openalex.org/W2112811019"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2466816617","https://openalex.org/W2051487156","https://openalex.org/W2073681303","https://openalex.org/W3174028392","https://openalex.org/W1970834875","https://openalex.org/W842936808","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2000517284"],"abstract_inverted_index":{"doi:":[0],"10.1093/bioinformatics/btu290":[1],"Bioinformatics":[2],"(2014)":[3],"30(12),":[4],"i175\u2013i184":[5],"The":[6,97],"authors":[7],"of":[8,104,144],"the":[9,14,22,27,38,44,49,55,68,75,101,105,115,121,142,150],"above":[10],"article":[11],"would":[12],"like":[13],"following":[15],"to":[16],"be":[17],"noted.":[18],"Results":[19,28],"reported":[20],"for":[21,74],"reporter":[23,145],"algorithm":[24],"(RA)":[25],"in":[26,54,109,136,149],"section":[29],"are":[30,94],"raw":[31],"z-scores":[32],"per":[33],"metabolite,":[34],"normalized":[35],"by":[36,43,80],"subtracting":[37],"sample":[39,45],"mean":[40],"and":[41,64,82,91,112],"dividing":[42],"standard":[46],"deviation.":[47],"Using":[48],"background":[50,98,116],"correction":[51,99],"as":[52,107],"described":[53],"original":[56],"scoring":[57],"scheme":[58],"(Ideker":[59],"et":[60],"al.,":[61],"2002;":[62],"Patil":[63],"Nielsen,":[65],"2005)":[66],"removes":[67],"hub":[69],"metabolite":[70],"bias":[71],"we":[72],"claim":[73],"RA":[76,106,118],"(for":[77,147],"both":[78],"normalization":[79],"k":[81],"k\u2060).":[83],"This":[84],"affects":[85],"only":[86],"our":[87],"comparisons":[88],"with":[89,130],"RA,":[90],"MIRA\u2019s":[92],"results":[93],"not":[95],"changed.":[96],"improves":[100],"empirical":[102],"significance":[103],"shown":[108,135],"Figure":[110,137],"5A":[111],"C.":[113],"After":[114],"correction,":[117],"is":[119],"among":[120],"top":[122],"three":[123],"permutations.":[124],"MIRA":[125],"still":[126],"performs":[127],"better":[128],"but":[129],"a":[131],"smaller":[132],"margin":[133],"than":[134],"5.":[138],"We":[139],"have":[140],"updated":[141],"lists":[143],"metabolites":[146],"RA)":[148],"supplementary":[151],"file.":[152]},"counts_by_year":[],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
