{"id":"https://openalex.org/W2028575572","doi":"https://doi.org/10.3390/computation3010002","title":"Computational Studies of the Intestinal Host-Microbiota Interactome","display_name":"Computational Studies of the Intestinal Host-Microbiota Interactome","publication_year":2015,"publication_date":"2015-01-14","ids":{"openalex":"https://openalex.org/W2028575572","doi":"https://doi.org/10.3390/computation3010002","mag":"2028575572","pmid":"https://pubmed.ncbi.nlm.nih.gov/34765258"},"language":"en","primary_location":{"id":"doi:10.3390/computation3010002","is_oa":true,"landing_page_url":"https://doi.org/10.3390/computation3010002","pdf_url":"https://www.mdpi.com/2079-3197/3/1/2/pdf?version=1421830724","source":{"id":"https://openalex.org/S2738402919","display_name":"Computation","issn_l":"2079-3197","issn":["2079-3197"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computation","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/2079-3197/3/1/2/pdf?version=1421830724","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078078996","display_name":"Scott Christley","orcid":"https://orcid.org/0000-0002-9889-1221"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Scott Christley","raw_affiliation_strings":["Department of Surgery, University of Chicago, 5841 South Maryland Avenue, Chicago, IL 60637, USA"],"affiliations":[{"raw_affiliation_string":"Department of Surgery, University of Chicago, 5841 South Maryland Avenue, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112042579","display_name":"Chase Cockrell","orcid":null},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chase Cockrell","raw_affiliation_strings":["Department of Surgery, University of Chicago, 5841 South Maryland Avenue, Chicago, IL 60637, USA"],"affiliations":[{"raw_affiliation_string":"Department of Surgery, University of Chicago, 5841 South Maryland Avenue, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5042696510","display_name":"Gary An","orcid":"https://orcid.org/0000-0003-4549-9004"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Gary An","raw_affiliation_strings":["Department of Surgery, University of Chicago, 5841 South Maryland Avenue, Chicago, IL 60637, USA"],"affiliations":[{"raw_affiliation_string":"Department of Surgery, University of Chicago, 5841 South Maryland Avenue, Chicago, IL 60637, USA","institution_ids":["https://openalex.org/I40347166"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5042696510"],"corresponding_institution_ids":["https://openalex.org/I40347166"],"apc_list":{"value":1400,"currency":"CHF","value_usd":1515},"apc_paid":{"value":1400,"currency":"CHF","value_usd":1515},"fwci":0.6025,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.68892987,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"3","issue":"1","first_page":"2","last_page":"28"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9998999834060669,"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":0.9998999834060669,"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":0.984499990940094,"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":0.9768999814987183,"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/interactome","display_name":"Interactome","score":0.9532788991928101},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5823706388473511},{"id":"https://openalex.org/keywords/host","display_name":"Host (biology)","score":0.5068691372871399},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.46992695331573486},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.39127442240715027},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.32538676261901855},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14122635126113892},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13398560881614685}],"concepts":[{"id":"https://openalex.org/C9760119","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interactome","level":3,"score":0.9532788991928101},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5823706388473511},{"id":"https://openalex.org/C126831891","wikidata":"https://www.wikidata.org/wiki/Q221673","display_name":"Host (biology)","level":2,"score":0.5068691372871399},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.46992695331573486},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.39127442240715027},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32538676261901855},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14122635126113892},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13398560881614685}],"mesh":[],"locations_count":6,"locations":[{"id":"doi:10.3390/computation3010002","is_oa":true,"landing_page_url":"https://doi.org/10.3390/computation3010002","pdf_url":"https://www.mdpi.com/2079-3197/3/1/2/pdf?version=1421830724","source":{"id":"https://openalex.org/S2738402919","display_name":"Computation","issn_l":"2079-3197","issn":["2079-3197"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computation","raw_type":"journal-article"},{"id":"pmid:34765258","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34765258","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":"Computation (Basel, Switzerland)","raw_type":null},{"id":"pmh:oai:doaj.org/article:8a9f6734d42d4f48a04ead7fc9f3aa1f","is_oa":true,"landing_page_url":"https://doaj.org/article/8a9f6734d42d4f48a04ead7fc9f3aa1f","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Computation, Vol 3, Iss 1, Pp 2-28 (2015)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:7471933","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC8580329","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:mdpi.com:/2079-3197/3/1/2/","is_oa":true,"landing_page_url":"http://dx.doi.org/10.3390/computation3010002","pdf_url":null,"source":{"id":"https://openalex.org/S4306400947","display_name":"MDPI (MDPI AG)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210097602","host_organization_name":"Multidisciplinary Digital Publishing Institute (Switzerland)","host_organization_lineage":["https://openalex.org/I4210097602"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Computation","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:8580329","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8580329","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Computation (Basel)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.3390/computation3010002","is_oa":true,"landing_page_url":"https://doi.org/10.3390/computation3010002","pdf_url":"https://www.mdpi.com/2079-3197/3/1/2/pdf?version=1421830724","source":{"id":"https://openalex.org/S2738402919","display_name":"Computation","issn_l":"2079-3197","issn":["2079-3197"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computation","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.4699999988079071}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2028575572.pdf","grobid_xml":"https://content.openalex.org/works/W2028575572.grobid-xml"},"referenced_works_count":180,"referenced_works":["https://openalex.org/W30236741","https://openalex.org/W157315403","https://openalex.org/W164075873","https://openalex.org/W1483113211","https://openalex.org/W1759111417","https://openalex.org/W1811186957","https://openalex.org/W1964463157","https://openalex.org/W1966245389","https://openalex.org/W1968475238","https://openalex.org/W1969346416","https://openalex.org/W1970067687","https://openalex.org/W1970160019","https://openalex.org/W1970472465","https://openalex.org/W1971061059","https://openalex.org/W1975546730","https://openalex.org/W1977523316","https://openalex.org/W1979392661","https://openalex.org/W1981203180","https://openalex.org/W1981509058","https://openalex.org/W1983314776","https://openalex.org/W1985197139","https://openalex.org/W1986366456","https://openalex.org/W1988098342","https://openalex.org/W1988925586","https://openalex.org/W1989021204","https://openalex.org/W1989348205","https://openalex.org/W1990002835","https://openalex.org/W1992396024","https://openalex.org/W1992585458","https://openalex.org/W1994070929","https://openalex.org/W1996932073","https://openalex.org/W1998633945","https://openalex.org/W2002880495","https://openalex.org/W2003788503","https://openalex.org/W2004413279","https://openalex.org/W2004463205","https://openalex.org/W2004548026","https://openalex.org/W2005801109","https://openalex.org/W2007334358","https://openalex.org/W2009115805","https://openalex.org/W2011246380","https://openalex.org/W2011312755","https://openalex.org/W2011486440","https://openalex.org/W2012606594","https://openalex.org/W2012994611","https://openalex.org/W2017925150","https://openalex.org/W2019744038","https://openalex.org/W2020035307","https://openalex.org/W2022330584","https://openalex.org/W2023447635","https://openalex.org/W2026006003","https://openalex.org/W2028731629","https://openalex.org/W2028824623","https://openalex.org/W2029002504","https://openalex.org/W2029548355","https://openalex.org/W2029985290","https://openalex.org/W2031084334","https://openalex.org/W2031893281","https://openalex.org/W2034082915","https://openalex.org/W2034875436","https://openalex.org/W2038882326","https://openalex.org/W2039105890","https://openalex.org/W2040011945","https://openalex.org/W2040206306","https://openalex.org/W2041117131","https://openalex.org/W2043248182","https://openalex.org/W2043364653","https://openalex.org/W2046254395","https://openalex.org/W2048596643","https://openalex.org/W2050169817","https://openalex.org/W2050609241","https://openalex.org/W2050672815","https://openalex.org/W2051397417","https://openalex.org/W2052297861","https://openalex.org/W2052554412","https://openalex.org/W2056879548","https://openalex.org/W2060422880","https://openalex.org/W2060780965","https://openalex.org/W2062382569","https://openalex.org/W2062535783","https://openalex.org/W2064070606","https://openalex.org/W2064738366","https://openalex.org/W2065016221","https://openalex.org/W2066447073","https://openalex.org/W2067241083","https://openalex.org/W2068234766","https://openalex.org/W2069877054","https://openalex.org/W2073061263","https://openalex.org/W2073141486","https://openalex.org/W2075109082","https://openalex.org/W2076382102","https://openalex.org/W2076393137","https://openalex.org/W2077631777","https://openalex.org/W2078214114","https://openalex.org/W2078355959","https://openalex.org/W2079028819","https://openalex.org/W2081653606","https://openalex.org/W2082193063","https://openalex.org/W2082464084","https://openalex.org/W2082948758","https://openalex.org/W2083717261","https://openalex.org/W2083752417","https://openalex.org/W2085298466","https://openalex.org/W2085646557","https://openalex.org/W2085962648","https://openalex.org/W2085993965","https://openalex.org/W2088209062","https://openalex.org/W2088925327","https://openalex.org/W2090304005","https://openalex.org/W2091136012","https://openalex.org/W2092083061","https://openalex.org/W2094781659","https://openalex.org/W2098824895","https://openalex.org/W2100084634","https://openalex.org/W2100318643","https://openalex.org/W2101077405","https://openalex.org/W2103006018","https://openalex.org/W2105129830","https://openalex.org/W2107014805","https://openalex.org/W2107062718","https://openalex.org/W2107279356","https://openalex.org/W2107680358","https://openalex.org/W2108959333","https://openalex.org/W2110300022","https://openalex.org/W2110568039","https://openalex.org/W2112208246","https://openalex.org/W2112907669","https://openalex.org/W2113977541","https://openalex.org/W2114034054","https://openalex.org/W2114994584","https://openalex.org/W2115416240","https://openalex.org/W2116846792","https://openalex.org/W2119124369","https://openalex.org/W2122414480","https://openalex.org/W2124927293","https://openalex.org/W2124985265","https://openalex.org/W2125631472","https://openalex.org/W2125826054","https://openalex.org/W2126176298","https://openalex.org/W2126218947","https://openalex.org/W2127380820","https://openalex.org/W2128769815","https://openalex.org/W2131294353","https://openalex.org/W2131415145","https://openalex.org/W2132801908","https://openalex.org/W2135595467","https://openalex.org/W2139745270","https://openalex.org/W2139884694","https://openalex.org/W2141324508","https://openalex.org/W2142619120","https://openalex.org/W2143263795","https://openalex.org/W2143842034","https://openalex.org/W2145370398","https://openalex.org/W2145945191","https://openalex.org/W2148630429","https://openalex.org/W2150320991","https://openalex.org/W2150908245","https://openalex.org/W2152538010","https://openalex.org/W2152558226","https://openalex.org/W2152751713","https://openalex.org/W2154785870","https://openalex.org/W2157053750","https://openalex.org/W2159482845","https://openalex.org/W2159532448","https://openalex.org/W2161251845","https://openalex.org/W2165151302","https://openalex.org/W2167639526","https://openalex.org/W2170951896","https://openalex.org/W2171385635","https://openalex.org/W2171517785","https://openalex.org/W2171560951","https://openalex.org/W2327628649","https://openalex.org/W2499783388","https://openalex.org/W2726651211","https://openalex.org/W2898172712","https://openalex.org/W2963044630","https://openalex.org/W4246131320","https://openalex.org/W4294216483","https://openalex.org/W6670176882","https://openalex.org/W6675601604"],"related_works":["https://openalex.org/W4292634579","https://openalex.org/W2964314049","https://openalex.org/W2022326234","https://openalex.org/W4225868462","https://openalex.org/W2979636089","https://openalex.org/W2169777166","https://openalex.org/W3005984791","https://openalex.org/W1982038138","https://openalex.org/W2007507741","https://openalex.org/W4377194874"],"abstract_inverted_index":{"A":[0],"large":[1],"and":[2,11,27,33,63,66,75,117,120,124],"growing":[3],"body":[4],"of":[5,14,21,43,50,52,61,83,92,139],"research":[6],"implicates":[7],"aberrant":[8],"immune":[9],"response":[10],"compositional":[12],"shifts":[13],"the":[15,19,31,34,38,44,48,102,107,113,128],"intestinal":[16,23,115],"microbiota":[17],"in":[18,47,127],"pathogenesis":[20],"many":[22,51],"disorders.":[24,54],"The":[25],"molecular":[26],"physical":[28],"interaction":[29],"between":[30],"host":[32],"microbiota,":[35],"known":[36],"as":[37,71],"host-microbiota":[39,56,108],"interactome,":[40,109],"is":[41,58],"one":[42],"key":[45],"drivers":[46],"pathophysiology":[49],"these":[53],"This":[55,99],"interactome":[57],"a":[59,72,90],"set":[60],"dynamic":[62],"complex":[64,81],"processes,":[65],"needs":[67],"to":[68],"be":[69],"treated":[70],"distinct":[73],"entity":[74],"subject":[76],"for":[77,105,131],"study.":[78],"Disentangling":[79],"this":[80,136],"web":[82],"interactions":[84],"will":[85],"require":[86],"novel":[87],"approaches,":[88],"using":[89],"combination":[91],"data-driven":[93],"bioinformatics":[94],"with":[95,110],"knowledge-driven":[96],"computational":[97,103],"modeling.":[98],"review":[100],"describes":[101],"approaches":[104],"investigating":[106],"emphasis":[111],"on":[112],"human":[114,140],"tract":[116],"innate":[118],"immunity,":[119],"highlights":[121],"open":[122],"challenges":[123],"existing":[125],"gaps":[126],"computation":[129],"methodology":[130],"advancing":[132],"our":[133],"knowledge":[134],"about":[135],"important":[137],"facet":[138],"health.":[141]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":2}],"updated_date":"2026-03-28T08:17:26.163206","created_date":"2025-10-10T00:00:00"}
