{"id":"https://openalex.org/W3020107438","doi":"https://doi.org/10.1093/nar/gkaa254","title":"MetagenoNets: comprehensive inference and meta-insights for microbial correlation networks","display_name":"MetagenoNets: comprehensive inference and meta-insights for microbial correlation networks","publication_year":2020,"publication_date":"2020-04-02","ids":{"openalex":"https://openalex.org/W3020107438","doi":"https://doi.org/10.1093/nar/gkaa254","mag":"3020107438","pmid":"https://pubmed.ncbi.nlm.nih.gov/32338757"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkaa254","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkaa254","pdf_url":"https://academic.oup.com/nar/article-pdf/48/W1/W572/33433292/gkaa254.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/48/W1/W572/33433292/gkaa254.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5058676700","display_name":"Sunil Nagpal","orcid":"https://orcid.org/0000-0001-9221-1443"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Sunil Nagpal","raw_affiliation_strings":["Bio-Sciences R&D Division, TCS Research, Pune, Maharashtra\u00a0411013, India"],"affiliations":[{"raw_affiliation_string":"Bio-Sciences R&D Division, TCS Research, Pune, Maharashtra\u00a0411013, India","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063181770","display_name":"Rashmi Singh","orcid":"https://orcid.org/0000-0003-3738-4186"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rashmi Singh","raw_affiliation_strings":["Bio-Sciences R&D Division, TCS Research, Pune, Maharashtra\u00a0411013, India"],"affiliations":[{"raw_affiliation_string":"Bio-Sciences R&D Division, TCS Research, Pune, Maharashtra\u00a0411013, India","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100607779","display_name":"Deepak Yadav","orcid":"https://orcid.org/0009-0000-3450-9292"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Deepak Yadav","raw_affiliation_strings":["Bio-Sciences R&D Division, TCS Research, Pune, Maharashtra\u00a0411013, India"],"affiliations":[{"raw_affiliation_string":"Bio-Sciences R&D Division, TCS Research, Pune, Maharashtra\u00a0411013, India","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5053125644","display_name":"Sharmila S. Mande","orcid":"https://orcid.org/0000-0002-2614-1982"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Sharmila S Mande","raw_affiliation_strings":["Bio-Sciences R&D Division, TCS Research, Pune, Maharashtra\u00a0411013, India"],"affiliations":[{"raw_affiliation_string":"Bio-Sciences R&D Division, TCS Research, Pune, Maharashtra\u00a0411013, India","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5053125644"],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":3.5054,"has_fulltext":false,"cited_by_count":56,"citation_normalized_percentile":{"value":0.93834352,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"48","issue":"W1","first_page":"W572","last_page":"W579"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9940000176429749,"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":0.9940000176429749,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.9871000051498413,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9771000146865845,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/biology","display_name":"Biology","score":0.9421839118003845},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.7498453855514526},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.582223117351532},{"id":"https://openalex.org/keywords/correlation","display_name":"Correlation","score":0.49267369508743286},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3585800528526306},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.3559032082557678},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1406000554561615},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.10113883018493652},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.07217755913734436}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.9421839118003845},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.7498453855514526},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.582223117351532},{"id":"https://openalex.org/C117220453","wikidata":"https://www.wikidata.org/wiki/Q5172842","display_name":"Correlation","level":2,"score":0.49267369508743286},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3585800528526306},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.3559032082557678},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1406000554561615},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.10113883018493652},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.07217755913734436},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D015212","descriptor_name":"Inflammatory Bowel Diseases","qualifier_ui":"Q000382","qualifier_name":"microbiology","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":3,"locations":[{"id":"doi:10.1093/nar/gkaa254","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkaa254","pdf_url":"https://academic.oup.com/nar/article-pdf/48/W1/W572/33433292/gkaa254.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:32338757","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32338757","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:7319469","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7319469","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkaa254","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkaa254","pdf_url":"https://academic.oup.com/nar/article-pdf/48/W1/W572/33433292/gkaa254.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320313903","display_name":"Tata Consultancy Services","ror":"https://ror.org/01b9n8m42"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3020107438.pdf","grobid_xml":"https://content.openalex.org/works/W3020107438.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W1891411045","https://openalex.org/W1964861583","https://openalex.org/W1971061059","https://openalex.org/W1998077837","https://openalex.org/W2011312755","https://openalex.org/W2067786443","https://openalex.org/W2098490582","https://openalex.org/W2106474670","https://openalex.org/W2113977541","https://openalex.org/W2134751812","https://openalex.org/W2135415614","https://openalex.org/W2163903604","https://openalex.org/W2164027931","https://openalex.org/W2165439432","https://openalex.org/W2179127114","https://openalex.org/W2340166670","https://openalex.org/W2342414537","https://openalex.org/W2346423776","https://openalex.org/W2461051021","https://openalex.org/W2462303459","https://openalex.org/W2558664061","https://openalex.org/W2592244930","https://openalex.org/W2608515760","https://openalex.org/W2761527979","https://openalex.org/W2769542288","https://openalex.org/W2770707670","https://openalex.org/W2771045365","https://openalex.org/W2776445964","https://openalex.org/W2790486637","https://openalex.org/W2885319825","https://openalex.org/W2897004029","https://openalex.org/W2922350535","https://openalex.org/W2939282892","https://openalex.org/W2950484163","https://openalex.org/W2968526921","https://openalex.org/W2973571991","https://openalex.org/W2987640385","https://openalex.org/W3202462308","https://openalex.org/W4245901258","https://openalex.org/W6640542767"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2055243143","https://openalex.org/W4321636575","https://openalex.org/W1986418932","https://openalex.org/W2357796999","https://openalex.org/W2045526782","https://openalex.org/W2741131631","https://openalex.org/W2156919374","https://openalex.org/W1483472507","https://openalex.org/W1984019423"],"abstract_inverted_index":{"Microbial":[0],"association":[1],"networks":[2,20],"are":[3,69],"frequently":[4],"used":[5],"for":[6,18,44,81,102,184],"understanding":[7],"and":[8,21,48,64,87,127,130,141,156,161,174],"comparing":[9,49],"community":[10],"dynamics":[11],"from":[12],"microbiome":[13,73,105],"datasets.":[14],"Inferring":[15],"microbial":[16,117,185],"correlations":[17],"such":[19],"obtaining":[22],"meaningful":[23],"biological":[24],"insights,":[25],"however,":[26],"requires":[27],"a":[28,41,111,181],"lengthy":[29],"data":[30,172],"management":[31],"workflow,":[32],"choice":[33,168],"of":[34,61,92,137,146,151,169],"appropriate":[35],"methods,":[36],"statistical":[37],"computations,":[38],"followed":[39],"by":[40],"different":[42],"pipeline":[43],"suitably":[45],"visualizing,":[46],"reporting":[47],"the":[50,58,79,99],"associations.":[51],"The":[52],"complexity":[53],"is":[54,189],"further":[55,96],"increased":[56],"with":[57,72],"added":[59],"dimension":[60],"multi-group":[62],"'meta-data'":[63],"'inter-omic'":[65],"functional":[66,122],"profiles":[67],"that":[68,178],"often":[70],"associated":[71],"studies.":[74,107],"This":[75],"not":[76],"only":[77],"necessitates":[78],"need":[80],"categorical":[82],"networks,":[83],"but":[84],"also":[85],"integrated":[86,139],"bi-partite":[88,142],"networks.":[89,143],"Multiple":[90],"options":[91],"network":[93,186],"inference":[94,132],"algorithms":[95,176],"add":[97],"to":[98],"efforts":[100],"required":[101],"performing":[103],"correlation-based":[104],"interaction":[106],"We":[108],"present":[109],"MetagenoNets,":[110],"web-based":[112],"application,":[113],"which":[114],"accepts":[115],"multi-environment":[116],"abundance":[118],"as":[119,121,133,135],"well":[120,134],"profiles,":[123],"intelligently":[124],"segregates":[125],"'continuous":[126],"categorical'":[128],"meta-data":[129],"allows":[131],"visualization":[136],"categorical,":[138],"(inter-omic)":[140],"Modular":[144],"structure":[145],"MetagenoNets":[147,188],"ensures":[148],"logical":[149],"flow":[150],"analysis":[152],"(inference,":[153],"integration,":[154],"exploration":[155],"comparison)":[157],"in":[158],"an":[159],"intuitive":[160],"interactive":[162],"personalized":[163],"dashboard":[164],"driven":[165],"framework.":[166],"Dynamic":[167],"filtration,":[170],"normalization,":[171],"transformation":[173],"correlation":[175],"ensures,":[177],"end-users":[179],"get":[180],"one-stop":[182],"solution":[183],"analysis.":[187],"freely":[190],"available":[191],"at":[192],"https://web.rniapps.net/metagenonets.":[193]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":9},{"year":2023,"cited_by_count":10},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":16},{"year":2020,"cited_by_count":2}],"updated_date":"2026-03-26T15:22:09.906841","created_date":"2025-10-10T00:00:00"}
