{"id":"https://openalex.org/W4211248483","doi":"https://doi.org/10.1093/bib/bbaa158","title":"Microbes and complex diseases: from experimental results to computational models","display_name":"Microbes and complex diseases: from experimental results to computational models","publication_year":2020,"publication_date":"2020-06-23","ids":{"openalex":"https://openalex.org/W4211248483","doi":"https://doi.org/10.1093/bib/bbaa158","pmid":"https://pubmed.ncbi.nlm.nih.gov/32766753"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaa158","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbaa158","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":"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/A5053490763","display_name":"Yan Zhao","orcid":"https://orcid.org/0000-0002-5319-0202"},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan Zhao","raw_affiliation_strings":["School of Information and Control Engineering, China University of Mining"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information and Control Engineering, China University of Mining","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027613930","display_name":"Chun-Chun Wang","orcid":"https://orcid.org/0000-0002-6795-4007"},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chun-Chun Wang","raw_affiliation_strings":["School of Information and Control Engineering, China University of Mining"],"raw_orcid":"https://orcid.org/0000-0002-6795-4007","affiliations":[{"raw_affiliation_string":"School of Information and Control Engineering, China University of Mining","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036210249","display_name":"Xing Chen","orcid":"https://orcid.org/0000-0001-9028-5342"},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xing Chen","raw_affiliation_strings":["School of Information and Control Engineering, China University of Mining"],"raw_orcid":"https://orcid.org/0000-0001-9028-5342","affiliations":[{"raw_affiliation_string":"School of Information and Control Engineering, China University of Mining","institution_ids":["https://openalex.org/I25757504"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5036210249"],"corresponding_institution_ids":["https://openalex.org/I25757504"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":2.3341,"has_fulltext":false,"cited_by_count":44,"citation_normalized_percentile":{"value":0.89495277,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"22","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9950000047683716,"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":0.9908999800682068,"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/computational-model","display_name":"Computational model","score":0.7359658479690552},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6932612657546997},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.5764520764350891},{"id":"https://openalex.org/keywords/variety","display_name":"Variety (cybernetics)","score":0.5721200704574585},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5696230530738831},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.49301883578300476},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.45552051067352295},{"id":"https://openalex.org/keywords/predictive-modelling","display_name":"Predictive modelling","score":0.44208648800849915},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.39955398440361023},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3932170867919922},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.25616416335105896},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.15644818544387817}],"concepts":[{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.7359658479690552},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6932612657546997},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.5764520764350891},{"id":"https://openalex.org/C136197465","wikidata":"https://www.wikidata.org/wiki/Q1729295","display_name":"Variety (cybernetics)","level":2,"score":0.5721200704574585},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5696230530738831},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.49301883578300476},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.45552051067352295},{"id":"https://openalex.org/C45804977","wikidata":"https://www.wikidata.org/wiki/Q7239673","display_name":"Predictive modelling","level":2,"score":0.44208648800849915},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.39955398440361023},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3932170867919922},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.25616416335105896},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.15644818544387817},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004194","descriptor_name":"Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004194","descriptor_name":"Disease","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":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbaa158","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbaa158","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:32766753","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32766753","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","score":0.5400000214576721,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G579333840","display_name":"\u57fa\u4e8e\u591a\u6e90\u6570\u636e\u878d\u5408\u7684\u836f\u7269\u54cd\u5e94\u548c\u836f\u7269\u76f8\u5173\u975e\u7f16\u7801RNA\u9776\u70b9\u9884\u6d4b\u7814\u7a76","funder_award_id":"61972399","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":132,"referenced_works":["https://openalex.org/W281665770","https://openalex.org/W935252537","https://openalex.org/W1584547534","https://openalex.org/W1703384511","https://openalex.org/W1769134165","https://openalex.org/W1964027278","https://openalex.org/W1968105193","https://openalex.org/W1971106435","https://openalex.org/W1973763660","https://openalex.org/W1978044639","https://openalex.org/W1978709058","https://openalex.org/W1980914602","https://openalex.org/W2001530795","https://openalex.org/W2001561488","https://openalex.org/W2004549986","https://openalex.org/W2008054523","https://openalex.org/W2008194879","https://openalex.org/W2008491586","https://openalex.org/W2009170813","https://openalex.org/W2011312755","https://openalex.org/W2011411661","https://openalex.org/W2012606594","https://openalex.org/W2018045523","https://openalex.org/W2018505426","https://openalex.org/W2019765234","https://openalex.org/W2033829415","https://openalex.org/W2038122249","https://openalex.org/W2041073071","https://openalex.org/W2061786865","https://openalex.org/W2075716829","https://openalex.org/W2082565035","https://openalex.org/W2095389688","https://openalex.org/W2101730352","https://openalex.org/W2103972604","https://openalex.org/W2106029302","https://openalex.org/W2106945333","https://openalex.org/W2108119513","https://openalex.org/W2112874908","https://openalex.org/W2115699469","https://openalex.org/W2117029190","https://openalex.org/W2117727476","https://openalex.org/W2120330409","https://openalex.org/W2127807352","https://openalex.org/W2128769815","https://openalex.org/W2129158737","https://openalex.org/W2130725058","https://openalex.org/W2131415145","https://openalex.org/W2131987814","https://openalex.org/W2139119508","https://openalex.org/W2144719328","https://openalex.org/W2145336165","https://openalex.org/W2149573313","https://openalex.org/W2152805980","https://openalex.org/W2157050207","https://openalex.org/W2157752701","https://openalex.org/W2160050864","https://openalex.org/W2162645168","https://openalex.org/W2165612380","https://openalex.org/W2166562121","https://openalex.org/W2167062509","https://openalex.org/W2168630917","https://openalex.org/W2170551349","https://openalex.org/W2174432380","https://openalex.org/W2178425989","https://openalex.org/W2183717576","https://openalex.org/W2189673550","https://openalex.org/W2274610632","https://openalex.org/W2300551961","https://openalex.org/W2322763599","https://openalex.org/W2346950316","https://openalex.org/W2377027462","https://openalex.org/W2408796111","https://openalex.org/W2415067505","https://openalex.org/W2494395359","https://openalex.org/W2537429907","https://openalex.org/W2567465856","https://openalex.org/W2574217686","https://openalex.org/W2584926544","https://openalex.org/W2590194234","https://openalex.org/W2607963356","https://openalex.org/W2608515760","https://openalex.org/W2608736608","https://openalex.org/W2612729422","https://openalex.org/W2614461365","https://openalex.org/W2624837622","https://openalex.org/W2626668030","https://openalex.org/W2739664659","https://openalex.org/W2743104969","https://openalex.org/W2743159750","https://openalex.org/W2752131265","https://openalex.org/W2756148272","https://openalex.org/W2765928324","https://openalex.org/W2771019114","https://openalex.org/W2772005301","https://openalex.org/W2790385355","https://openalex.org/W2803434593","https://openalex.org/W2806774580","https://openalex.org/W2808042160","https://openalex.org/W2810107880","https://openalex.org/W2810953629","https://openalex.org/W2886624004","https://openalex.org/W2888216133","https://openalex.org/W2892502396","https://openalex.org/W2894128290","https://openalex.org/W2894194868","https://openalex.org/W2896541477","https://openalex.org/W2897611961","https://openalex.org/W2900334494","https://openalex.org/W2901312953","https://openalex.org/W2903096015","https://openalex.org/W2903953910","https://openalex.org/W2903959374","https://openalex.org/W2904397976","https://openalex.org/W2916981547","https://openalex.org/W2921356981","https://openalex.org/W2932049125","https://openalex.org/W2936110251","https://openalex.org/W2938306835","https://openalex.org/W2945022544","https://openalex.org/W2950868848","https://openalex.org/W2951739649","https://openalex.org/W2957404091","https://openalex.org/W2960235084","https://openalex.org/W2967638886","https://openalex.org/W2971435330","https://openalex.org/W2981895524","https://openalex.org/W2988135813","https://openalex.org/W2990717563","https://openalex.org/W3005129890","https://openalex.org/W4233019229","https://openalex.org/W6655649756","https://openalex.org/W6686420396"],"related_works":["https://openalex.org/W2032233321","https://openalex.org/W3121970507","https://openalex.org/W2110028391","https://openalex.org/W54497855","https://openalex.org/W217960748","https://openalex.org/W3125814499","https://openalex.org/W2090827041","https://openalex.org/W4318612353","https://openalex.org/W4390939596","https://openalex.org/W4389829534"],"abstract_inverted_index":{"Studies":[0],"have":[1,19,57,147],"shown":[2],"that":[3,14,59,155,233],"the":[4,38,65,68,84,87,93,108,118,126,133,206,216,219],"number":[5],"of":[6,15,30,40,67,86,112,120,128,168,186,212,222,245],"microbes":[7,18,98,154,169],"in":[8,27,49,242],"humans":[9],"is":[10,136],"almost":[11],"10":[12],"times":[13],"cells.":[16],"These":[17],"been":[20],"proven":[21],"to":[22,81,103,131,152,178,238],"play":[23],"an":[24],"important":[25,240],"role":[26],"a":[28,76,165],"variety":[29],"physiological":[31],"processes,":[32],"such":[33],"as":[34,172,174,208,210],"enhancing":[35],"immunity,":[36],"improving":[37],"digestion":[39],"gastrointestinal":[41],"tract":[42],"and":[43,53,72,97,110,138,144,170,199,214],"strengthening":[44],"metabolic":[45],"function.":[46],"In":[47,140],"addition,":[48],"recent":[50,141],"years,":[51,142],"more":[52,54,143,145],"research":[55],"results":[56],"indicated":[58],"there":[60],"are":[61,156,236],"close":[62],"relationships":[63,94],"between":[64,95],"emergence":[66],"human":[69],"noncommunicable":[70],"diseases":[71,96,113],"microbes,":[73],"which":[74],"provides":[75],"novel":[77],"insight":[78],"for":[79,107,218],"us":[80],"further":[82],"understand":[83],"pathogenesis":[85],"diseases.":[88,160],"An":[89],"in-depth":[90],"study":[91],"about":[92],"will":[99],"not":[100],"only":[101],"contribute":[102],"exploring":[104],"new":[105,121],"strategies":[106],"diagnosis":[109],"treatment":[111],"but":[114],"also":[115],"significantly":[116],"heighten":[117],"efficiency":[119],"drugs":[122],"development.":[123],"However,":[124],"applying":[125],"methods":[127],"biological":[129],"experimentation":[130],"reveal":[132],"microbe-disease":[134,224],"associations":[135,225],"costly":[137],"inefficient.":[139],"researchers":[146],"constructed":[148],"multiple":[149],"computational":[150,187,228,234],"models":[151,198,235],"predict":[153],"potentially":[157],"associated":[158],"with":[159,164],"Here,":[161],"we":[162,181,204],"start":[163],"brief":[166],"introduction":[167],"databases":[171],"well":[173,209],"web":[175],"servers":[176],"related":[177],"them.":[179],"Then,":[180],"mainly":[182],"introduce":[183],"four":[184],"kinds":[185],"models,":[188,192,195],"including":[189],"score":[190],"function-based":[191],"network":[193],"algorithm-based":[194],"machine":[196],"learning-based":[197],"experimental":[200],"analysis-based":[201],"models.":[202,229],"Finally,":[203],"summarize":[205],"advantages":[207],"disadvantages":[211],"them":[213],"set":[215],"direction":[217],"future":[220],"work":[221],"revealing":[223],"based":[226],"on":[227],"We":[230],"firmly":[231],"believe":[232],"expected":[237],"be":[239],"tools":[241],"large-scale":[243],"predictions":[244],"disease-related":[246],"microbes.":[247]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":9},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":16},{"year":2021,"cited_by_count":7}],"updated_date":"2026-06-06T09:05:17.133730","created_date":"2025-10-10T00:00:00"}
