{"id":"https://openalex.org/W2136399659","doi":"https://doi.org/10.1093/bib/bbs002","title":"Data mining the human gut microbiota for therapeutic targets","display_name":"Data mining the human gut microbiota for therapeutic targets","publication_year":2012,"publication_date":"2012-03-24","ids":{"openalex":"https://openalex.org/W2136399659","doi":"https://doi.org/10.1093/bib/bbs002","mag":"2136399659","pmid":"https://pubmed.ncbi.nlm.nih.gov/22445903"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbs002","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbs002","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/A5088229596","display_name":"Maggie Collison","orcid":"https://orcid.org/0000-0003-0575-0997"},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"M. Collison","raw_affiliation_strings":["Biopharmaceutical Process Development Centre, School of Chemical Engineering and Advanced Materials, Newcastle University, UK"],"affiliations":[{"raw_affiliation_string":"Biopharmaceutical Process Development Centre, School of Chemical Engineering and Advanced Materials, Newcastle University, UK","institution_ids":["https://openalex.org/I84884186"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086891018","display_name":"Robert P. Hirt","orcid":"https://orcid.org/0000-0002-3760-9958"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"R. P. Hirt","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089978830","display_name":"Anil Wipat","orcid":"https://orcid.org/0000-0001-7310-4191"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"A. Wipat","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080394398","display_name":"Sirintra Nakjang","orcid":"https://orcid.org/0000-0003-2960-6842"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"S. Nakjang","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039979296","display_name":"Philippe Sans\u00e9au","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"P. Sanseau","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5089794666","display_name":"James R. Brown","orcid":"https://orcid.org/0000-0002-9368-627X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"J. R. Brown","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5088229596"],"corresponding_institution_ids":["https://openalex.org/I84884186"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.9701,"has_fulltext":false,"cited_by_count":27,"citation_normalized_percentile":{"value":0.86402266,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"13","issue":"6","first_page":"751","last_page":"768"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":1.0,"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/T10066","display_name":"Gut microbiota and health","score":1.0,"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/T11288","display_name":"Clostridium difficile and Clostridium perfringens research","score":0.9965999722480774,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10276","display_name":"Helicobacter pylori-related gastroenterology studies","score":0.9815999865531921,"subfield":{"id":"https://openalex.org/subfields/2746","display_name":"Surgery"},"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/microbiome","display_name":"Microbiome","score":0.7086154222488403},{"id":"https://openalex.org/keywords/human-microbiome","display_name":"Human microbiome","score":0.6840463876724243},{"id":"https://openalex.org/keywords/human-health","display_name":"Human health","score":0.6248670816421509},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5781663060188293},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.54430091381073},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.5206148624420166},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.49691370129585266},{"id":"https://openalex.org/keywords/gut-flora","display_name":"Gut flora","score":0.47511205077171326},{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.45728960633277893},{"id":"https://openalex.org/keywords/organism","display_name":"Organism","score":0.451180100440979},{"id":"https://openalex.org/keywords/drug-development","display_name":"Drug development","score":0.4235767722129822},{"id":"https://openalex.org/keywords/human-disease","display_name":"Human disease","score":0.4184337258338928},{"id":"https://openalex.org/keywords/drug","display_name":"Drug","score":0.41392844915390015},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.355152428150177},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.2957671582698822},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.1858178973197937},{"id":"https://openalex.org/keywords/pharmacology","display_name":"Pharmacology","score":0.1770017147064209},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.1254546344280243},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12320935726165771},{"id":"https://openalex.org/keywords/environmental-health","display_name":"Environmental health","score":0.10581672191619873}],"concepts":[{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.7086154222488403},{"id":"https://openalex.org/C91478284","wikidata":"https://www.wikidata.org/wiki/Q6623796","display_name":"Human microbiome","level":3,"score":0.6840463876724243},{"id":"https://openalex.org/C2987857752","wikidata":"https://www.wikidata.org/wiki/Q12147","display_name":"Human health","level":2,"score":0.6248670816421509},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5781663060188293},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.54430091381073},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.5206148624420166},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.49691370129585266},{"id":"https://openalex.org/C539455810","wikidata":"https://www.wikidata.org/wiki/Q739734","display_name":"Gut flora","level":2,"score":0.47511205077171326},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.45728960633277893},{"id":"https://openalex.org/C137858568","wikidata":"https://www.wikidata.org/wiki/Q7239","display_name":"Organism","level":2,"score":0.451180100440979},{"id":"https://openalex.org/C64903051","wikidata":"https://www.wikidata.org/wiki/Q2198549","display_name":"Drug development","level":3,"score":0.4235767722129822},{"id":"https://openalex.org/C2988867146","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Human disease","level":3,"score":0.4184337258338928},{"id":"https://openalex.org/C2780035454","wikidata":"https://www.wikidata.org/wiki/Q8386","display_name":"Drug","level":2,"score":0.41392844915390015},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.355152428150177},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2957671582698822},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.1858178973197937},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.1770017147064209},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.1254546344280243},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12320935726165771},{"id":"https://openalex.org/C99454951","wikidata":"https://www.wikidata.org/wiki/Q932068","display_name":"Environmental health","level":1,"score":0.10581672191619873},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019936","descriptor_name":"Probiotics","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D019936","descriptor_name":"Probiotics","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D019936","descriptor_name":"Probiotics","qualifier_ui":"Q000627","qualifier_name":"therapeutic use","is_major_topic":false},{"descriptor_ui":"D041981","descriptor_name":"Gastrointestinal Tract","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D041981","descriptor_name":"Gastrointestinal Tract","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D041981","descriptor_name":"Gastrointestinal Tract","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbs002","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbs002","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:22445903","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22445903","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}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.47999998927116394}],"awards":[],"funders":[{"id":"https://openalex.org/F4320307773","display_name":"GlaxoSmithKline","ror":"https://ror.org/01xsqw823"},{"id":"https://openalex.org/F4320320295","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":122,"referenced_works":["https://openalex.org/W160775263","https://openalex.org/W626513392","https://openalex.org/W1489076501","https://openalex.org/W1490053404","https://openalex.org/W1765421610","https://openalex.org/W1893946689","https://openalex.org/W1918392116","https://openalex.org/W1931590386","https://openalex.org/W1964141703","https://openalex.org/W1967821667","https://openalex.org/W1968105193","https://openalex.org/W1968294128","https://openalex.org/W1971058409","https://openalex.org/W1979992629","https://openalex.org/W1981227783","https://openalex.org/W1987515611","https://openalex.org/W1989348205","https://openalex.org/W1990032652","https://openalex.org/W1991147524","https://openalex.org/W1993267991","https://openalex.org/W1994360374","https://openalex.org/W1995393174","https://openalex.org/W1998108632","https://openalex.org/W2001897420","https://openalex.org/W2003441269","https://openalex.org/W2003773835","https://openalex.org/W2006069224","https://openalex.org/W2008397900","https://openalex.org/W2009170813","https://openalex.org/W2009656245","https://openalex.org/W2011848880","https://openalex.org/W2014676683","https://openalex.org/W2020423296","https://openalex.org/W2020913417","https://openalex.org/W2022819018","https://openalex.org/W2023046869","https://openalex.org/W2023506796","https://openalex.org/W2024330772","https://openalex.org/W2025134067","https://openalex.org/W2026074634","https://openalex.org/W2030108859","https://openalex.org/W2032230795","https://openalex.org/W2034082915","https://openalex.org/W2041446227","https://openalex.org/W2042360862","https://openalex.org/W2046618236","https://openalex.org/W2046846930","https://openalex.org/W2047655644","https://openalex.org/W2047885502","https://openalex.org/W2051322058","https://openalex.org/W2055615325","https://openalex.org/W2057430186","https://openalex.org/W2058517273","https://openalex.org/W2058583788","https://openalex.org/W2058939956","https://openalex.org/W2059272234","https://openalex.org/W2060485250","https://openalex.org/W2061016618","https://openalex.org/W2061654988","https://openalex.org/W2062090250","https://openalex.org/W2065639715","https://openalex.org/W2066011810","https://openalex.org/W2066745538","https://openalex.org/W2069098110","https://openalex.org/W2070760129","https://openalex.org/W2071790674","https://openalex.org/W2072970694","https://openalex.org/W2073332363","https://openalex.org/W2073895233","https://openalex.org/W2074370114","https://openalex.org/W2082345749","https://openalex.org/W2082704291","https://openalex.org/W2084512022","https://openalex.org/W2085926377","https://openalex.org/W2087292184","https://openalex.org/W2090925778","https://openalex.org/W2097988818","https://openalex.org/W2099471877","https://openalex.org/W2104149855","https://openalex.org/W2107037205","https://openalex.org/W2107152719","https://openalex.org/W2110235509","https://openalex.org/W2115356798","https://openalex.org/W2116895571","https://openalex.org/W2117727476","https://openalex.org/W2117736614","https://openalex.org/W2118001436","https://openalex.org/W2119605330","https://openalex.org/W2123196669","https://openalex.org/W2124626721","https://openalex.org/W2125826054","https://openalex.org/W2126218947","https://openalex.org/W2127415562","https://openalex.org/W2131229759","https://openalex.org/W2131988453","https://openalex.org/W2133856765","https://openalex.org/W2136780652","https://openalex.org/W2139464173","https://openalex.org/W2140145798","https://openalex.org/W2140290331","https://openalex.org/W2142735254","https://openalex.org/W2144464830","https://openalex.org/W2145448069","https://openalex.org/W2149351690","https://openalex.org/W2149573313","https://openalex.org/W2149824014","https://openalex.org/W2151084213","https://openalex.org/W2152575922","https://openalex.org/W2153615941","https://openalex.org/W2155142785","https://openalex.org/W2155897723","https://openalex.org/W2159788862","https://openalex.org/W2160166285","https://openalex.org/W2162971726","https://openalex.org/W2165065263","https://openalex.org/W2165257283","https://openalex.org/W2167062509","https://openalex.org/W2169330513","https://openalex.org/W2171571559","https://openalex.org/W2184417913","https://openalex.org/W2304131176","https://openalex.org/W4233693215"],"related_works":["https://openalex.org/W1603910045","https://openalex.org/W1222064643","https://openalex.org/W2086098522","https://openalex.org/W2148304448","https://openalex.org/W2017030127","https://openalex.org/W1577826155","https://openalex.org/W3084871860","https://openalex.org/W3149998985","https://openalex.org/W2792771031","https://openalex.org/W3096875494"],"abstract_inverted_index":{"It":[0],"is":[1,77],"well":[2,130],"known":[3],"that":[4,134],"microbes":[5],"have":[6,34],"an":[7],"intricate":[8],"role":[9,43],"in":[10,47,62,74,104],"human":[11,20],"health":[12,21,105],"and":[13,55,106,117,165],"disease.":[14,107],"However,":[15],"targeted":[16],"strategies":[17,122],"for":[18,68,114,123],"modulating":[19],"through":[22],"the":[23,42,48,51,59,97,101,115,152],"modification":[24],"of":[25,44,50,96,100,119,151,155],"either":[26],"human-associated":[27],"microbial":[28,45,128,153],"communities":[29,46],"or":[30,140,158],"associated":[31],"human-host":[32,132],"targets":[33,133],"yet":[35],"to":[36,92,163],"be":[37],"realized.":[38],"New":[39],"knowledge":[40,109],"about":[41],"microbiota":[49,72],"gastrointestinal":[52],"tract":[53],"(GIT)":[54],"their":[56],"collective":[57],"genomes,":[58],"GIT":[60,71],"microbiome,":[61],"chronic":[63,124],"diseases":[64,125],"opens":[65],"new":[66,120],"opportunities":[67],"therapeutic":[69,121],"interventions.":[70],"participation":[73],"drug":[75],"metabolism":[76],"a":[78,93,112],"further":[79,148],"pharmaceutical":[80],"consideration.":[81],"In":[82,142],"this":[83],"review,":[84],"we":[85],"discuss":[86],"how":[87],"computational":[88],"methods":[89],"could":[90,161],"lead":[91,162],"systems-level":[94],"understanding":[95,150],"global":[98],"physiology":[99],"host-microbiota":[102],"superorganism":[103],"Such":[108],"will":[110,147],"provide":[111],"platform":[113],"identification":[116],"development":[118],"possibly":[126],"involving":[127],"as":[129,131],"improve":[135],"upon":[136],"existing":[137],"probiotics,":[138],"prebiotics":[139],"antibiotics.":[141],"addition,":[143],"integrative":[144],"bioinformatics":[145],"analysis":[146],"our":[149],"biotransformation":[154],"exogenous":[156],"compounds":[157],"xenobiotics,":[159],"which":[160],"safer":[164],"more":[166],"efficacious":[167],"drugs.":[168]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":4},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":3}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}
