{"id":"https://openalex.org/W3121921855","doi":"https://doi.org/10.1093/bioinformatics/btab047","title":"ICN: extracting interconnected communities in gene co-expression networks","display_name":"ICN: extracting interconnected communities in gene co-expression networks","publication_year":2021,"publication_date":"2021-01-21","ids":{"openalex":"https://openalex.org/W3121921855","doi":"https://doi.org/10.1093/bioinformatics/btab047","mag":"3121921855","pmid":"https://pubmed.ncbi.nlm.nih.gov/33508087"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab047","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab047","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8337009","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103018992","display_name":"Qiong Wu","orcid":"https://orcid.org/0000-0001-5747-1899"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Qiong Wu","raw_affiliation_strings":["Department of Mathematics, University of Maryland , College Park, MD 20740, USA"],"raw_orcid":"https://orcid.org/0000-0001-5747-1899","affiliations":[{"raw_affiliation_string":"Department of Mathematics, University of Maryland , College Park, MD 20740, USA","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059242731","display_name":"Tianzhou Ma","orcid":"https://orcid.org/0000-0003-3605-0811"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tianzhou Ma","raw_affiliation_strings":["Department of Biostatistics and Bioinformatics, School of Public Health, University of Maryland , College Park, MD 20740, USA"],"raw_orcid":"https://orcid.org/0000-0003-3605-0811","affiliations":[{"raw_affiliation_string":"Department of Biostatistics and Bioinformatics, School of Public Health, University of Maryland , College Park, MD 20740, USA","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006107034","display_name":"Qingzhi Liu","orcid":"https://orcid.org/0000-0003-2621-9222"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Qingzhi Liu","raw_affiliation_strings":["Department of Biostatistics, School of Public Health, University of Michigan , Ann Arbor, MI 48109, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, School of Public Health, University of Michigan , Ann Arbor, MI 48109, USA","institution_ids":["https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001694053","display_name":"Donald K. Milton","orcid":"https://orcid.org/0000-0002-0550-7834"},"institutions":[{"id":"https://openalex.org/I66946132","display_name":"University of Maryland, College Park","ror":"https://ror.org/047s2c258","country_code":"US","type":"education","lineage":["https://openalex.org/I66946132"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Donald K Milton","raw_affiliation_strings":["Department of Biostatistics and Bioinformatics, School of Public Health, University of Maryland , College Park, MD 20740, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics and Bioinformatics, School of Public Health, University of Maryland , College Park, MD 20740, USA","institution_ids":["https://openalex.org/I66946132"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100368708","display_name":"Yuan Zhang","orcid":"https://orcid.org/0000-0002-4615-8810"},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yuan Zhang","raw_affiliation_strings":["Department of Statistics, Ohio State University , Columbus, OH 43210, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics, Ohio State University , Columbus, OH 43210, USA","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100366879","display_name":"Shuo Chen","orcid":"https://orcid.org/0000-0002-7990-4947"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Shuo Chen","raw_affiliation_strings":["Department of Epidemiology and Public Health, Division of Biostatistics and Bioinformatics, School of Medicine, University of Maryland , Baltimore, MD 43210, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Epidemiology and Public Health, Division of Biostatistics and Bioinformatics, School of Medicine, University of Maryland , Baltimore, MD 43210, USA","institution_ids":["https://openalex.org/I126744593"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100366879"],"corresponding_institution_ids":["https://openalex.org/I126744593"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.3256,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.54758209,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"37","issue":"14","first_page":"1997","last_page":"2003"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.8091999888420105,"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":0.8091999888420105,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.08100000023841858,"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/T10885","display_name":"Gene expression and cancer classification","score":0.05139999836683273,"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":0.6453685164451599},{"id":"https://openalex.org/keywords/gene-co-expression-network","display_name":"Gene co-expression network","score":0.5747998952865601},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5494739413261414},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5328693389892578},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.5274180173873901},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.49008119106292725},{"id":"https://openalex.org/keywords/biclustering","display_name":"Biclustering","score":0.4821571707725525},{"id":"https://openalex.org/keywords/ensembl","display_name":"Ensembl","score":0.4630088806152344},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.42901793122291565},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.424453467130661},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4163259267807007},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.4058934450149536},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.40344130992889404},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3890930712223053},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.33852437138557434},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.25360405445098877},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.21862345933914185},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.17954346537590027},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.1402135193347931}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6453685164451599},{"id":"https://openalex.org/C2778022302","wikidata":"https://www.wikidata.org/wiki/Q18207329","display_name":"Gene co-expression network","level":5,"score":0.5747998952865601},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5494739413261414},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5328693389892578},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.5274180173873901},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.49008119106292725},{"id":"https://openalex.org/C144817290","wikidata":"https://www.wikidata.org/wiki/Q2976575","display_name":"Biclustering","level":5,"score":0.4821571707725525},{"id":"https://openalex.org/C141674004","wikidata":"https://www.wikidata.org/wiki/Q1344256","display_name":"Ensembl","level":5,"score":0.4630088806152344},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.42901793122291565},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.424453467130661},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4163259267807007},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.4058934450149536},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.40344130992889404},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3890930712223053},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.33852437138557434},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.25360405445098877},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.21862345933914185},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.17954346537590027},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.1402135193347931},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C33704608","wikidata":"https://www.wikidata.org/wiki/Q5014717","display_name":"CURE data clustering algorithm","level":4,"score":0.0},{"id":"https://openalex.org/C94641424","wikidata":"https://www.wikidata.org/wiki/Q5172845","display_name":"Correlation clustering","level":3,"score":0.0},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.0},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab047","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab047","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33508087","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33508087","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:8337009","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8337009","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:8337009","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8337009","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"Bioinformatics","raw_type":"Text"},"sustainable_development_goals":[{"score":0.4399999976158142,"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17"}],"awards":[{"id":"https://openalex.org/G3355932817","display_name":null,"funder_award_id":"1DP1DA048968-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337347","display_name":"National Institute on Drug Abuse","ror":"https://ror.org/00fq5cm18"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":46,"referenced_works":["https://openalex.org/W1255676896","https://openalex.org/W1551845545","https://openalex.org/W1554944419","https://openalex.org/W1566896104","https://openalex.org/W1817993605","https://openalex.org/W1932560099","https://openalex.org/W1966327575","https://openalex.org/W1989119979","https://openalex.org/W1989277387","https://openalex.org/W1990512452","https://openalex.org/W2000253969","https://openalex.org/W2000367221","https://openalex.org/W2024103316","https://openalex.org/W2024728905","https://openalex.org/W2060705109","https://openalex.org/W2083984856","https://openalex.org/W2095293504","https://openalex.org/W2107107106","https://openalex.org/W2109280977","https://openalex.org/W2111565546","https://openalex.org/W2117994680","https://openalex.org/W2118727666","https://openalex.org/W2122051507","https://openalex.org/W2124209874","https://openalex.org/W2127048411","https://openalex.org/W2128689695","https://openalex.org/W2131933020","https://openalex.org/W2133254377","https://openalex.org/W2141224543","https://openalex.org/W2148606196","https://openalex.org/W2150926065","https://openalex.org/W2159482845","https://openalex.org/W2162142896","https://openalex.org/W2163480486","https://openalex.org/W2175530190","https://openalex.org/W2626235006","https://openalex.org/W2774875527","https://openalex.org/W2787894218","https://openalex.org/W2793868694","https://openalex.org/W2803396874","https://openalex.org/W3008216405","https://openalex.org/W3015216926","https://openalex.org/W3102641634","https://openalex.org/W4233698560","https://openalex.org/W4294216483","https://openalex.org/W6676274861"],"related_works":["https://openalex.org/W2156564520","https://openalex.org/W4307843054","https://openalex.org/W2104570606","https://openalex.org/W2587303152","https://openalex.org/W2405878133","https://openalex.org/W2167592961","https://openalex.org/W2133863157","https://openalex.org/W1984847530","https://openalex.org/W2161484887","https://openalex.org/W2204438866"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1,42,101,160,186],"analysis":[2],"of":[3,35,79,86,96,140,182],"gene":[4,23,72],"co-expression":[5,73,116],"network":[6],"(GCN)":[7],"is":[8,91,105,188],"critical":[9],"in":[10,38],"examining":[11],"the":[12,17,39,56,114,120,138,178],"gene-gene":[13],"interactions":[14],"and":[15,51,108,136,170,193],"learning":[16],"underlying":[18],"complex":[19,57],"yet":[20],"highly":[21],"organized":[22],"regulatory":[24],"mechanisms.":[25],"Numerous":[26],"clustering":[27],"methods":[28],"have":[29],"been":[30],"developed":[31],"to":[32,67,113,155,177],"detect":[33],"communities":[34,70,80],"co-expressed":[36],"genes":[37,87,97],"large":[40],"network.":[41,74],"assumed":[43],"independent":[44],"community":[45,90,103,152],"structure,":[46],"however,":[47],"can":[48],"be":[49,81],"oversimplified":[50],"may":[52],"not":[53],"adequately":[54],"characterize":[55],"biological":[58,174],"processes.":[59],"RESULTS:":[60],"We":[61,75,134,147],"develop":[62,124],"a":[63,77,84,94,110],"new":[64],"computational":[65,121],"package":[66],"extract":[68],"interconnected":[69,82,102,151],"from":[71,88,98,159],"consider":[76],"pair":[78],"if":[83],"subset":[85,95],"one":[89],"correlated":[92],"with":[93],"another":[99],"community.":[100],"structure":[104],"more":[106],"flexible":[107],"provides":[109],"better":[111],"fit":[112],"empirical":[115],"matrix.":[117],"To":[118],"overcome":[119],"challenges,":[122],"we":[123],"efficient":[125],"algorithms":[126],"by":[127,143],"leveraging":[128],"advanced":[129],"graph":[130],"norm":[131],"shrinkage":[132],"approach.":[133],"validate":[135],"show":[137],"advantage":[139],"our":[141,150],"method":[142,154],"extensive":[144],"simulation":[145],"studies.":[146],"then":[148],"apply":[149],"detection":[153],"an":[156],"RNA-seq":[157],"data":[158,199],"Cancer":[161],"Genome":[162],"Atlas":[163],"(TCGA)":[164],"Acute":[165],"Myeloid":[166],"Leukemia":[167],"(AML)":[168],"study":[169],"identify":[171],"essential":[172],"interacting":[173],"pathways":[175],"related":[176],"immune":[179],"evasion":[180],"mechanism":[181],"tumor":[183],"cells.":[184],"AVAILABILITY:":[185],"software":[187],"available":[189,201],"at":[190,202],"Github:":[191],"https://github.com/qwu1221/ICN":[192],"Figshare:":[194],"https://figshare.com/articles/software/ICN-package/13229093.":[195],"SUPPLEMENTARY":[196],"INFORMATION:":[197],"Supplementary":[198],"are":[200],"Bioinformatics":[203],"online.":[204]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}