{"id":"https://openalex.org/W2607469551","doi":"https://doi.org/10.1093/bioinformatics/btx214","title":"Network module-based model in the differential expression analysis for RNA-seq","display_name":"Network module-based model in the differential expression analysis for RNA-seq","publication_year":2017,"publication_date":"2017-04-11","ids":{"openalex":"https://openalex.org/W2607469551","doi":"https://doi.org/10.1093/bioinformatics/btx214","mag":"2607469551","pmid":"https://pubmed.ncbi.nlm.nih.gov/28407034"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx214","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx214","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/17/2699/25163800/btx214.pdf","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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/33/17/2699/25163800/btx214.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5049724242","display_name":"Mingli Lei","orcid":"https://orcid.org/0000-0001-7438-9758"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Mingli Lei","raw_affiliation_strings":["Department of Bioinformatics and Biostatistics, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics and Biostatistics, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069988397","display_name":"Jia Xu","orcid":"https://orcid.org/0000-0003-0254-6261"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jia Xu","raw_affiliation_strings":["Department of Bioinformatics and Biostatistics, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics and Biostatistics, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073703969","display_name":"Li\u2010Ching Huang","orcid":"https://orcid.org/0000-0002-5959-7097"},"institutions":[{"id":"https://openalex.org/I200719446","display_name":"Vanderbilt University","ror":"https://ror.org/02vm5rt34","country_code":"US","type":"education","lineage":["https://openalex.org/I200719446"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Li-Ching Huang","raw_affiliation_strings":["Center for Quantitative Sciences, Vanderbilt University, Nashville, TN, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Quantitative Sciences, Vanderbilt University, Nashville, TN, USA","institution_ids":["https://openalex.org/I200719446"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101537858","display_name":"Lily Wang","orcid":"https://orcid.org/0000-0002-6630-8767"},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lily Wang","raw_affiliation_strings":["Department of Public Health Sciences, Division of Biostatistics, University of Miami Miller School of Medicine, Miami, FL, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Public Health Sciences, Division of Biostatistics, University of Miami Miller School of Medicine, Miami, FL, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100337051","display_name":"Jing Li","orcid":"https://orcid.org/0000-0003-1160-6959"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jing Li","raw_affiliation_strings":["Department of Bioinformatics and Biostatistics, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics and Biostatistics, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, People's Republic of China","institution_ids":["https://openalex.org/I183067930"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5100337051"],"corresponding_institution_ids":["https://openalex.org/I183067930"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5465,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.64944762,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"33","issue":"17","first_page":"2699","last_page":"2705"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.7278000116348267,"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/T10885","display_name":"Gene expression and cancer classification","score":0.7278000116348267,"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":0.13490000367164612,"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":0.035599999129772186,"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/rna-seq","display_name":"RNA-Seq","score":0.6749480962753296},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6124871373176575},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4937196671962738},{"id":"https://openalex.org/keywords/microarray-analysis-techniques","display_name":"Microarray analysis techniques","score":0.4308469295501709},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.419241338968277},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.41618362069129944},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3967643976211548},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3854026794433594},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.35093018412590027},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3396053910255432},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.16367220878601074}],"concepts":[{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.6749480962753296},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6124871373176575},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4937196671962738},{"id":"https://openalex.org/C8415881","wikidata":"https://www.wikidata.org/wiki/Q6839217","display_name":"Microarray analysis techniques","level":4,"score":0.4308469295501709},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.419241338968277},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.41618362069129944},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3967643976211548},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3854026794433594},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.35093018412590027},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3396053910255432},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.16367220878601074}],"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":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D007680","descriptor_name":"Kidney Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015972","descriptor_name":"Gene Expression Regulation, Neoplastic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btx214","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx214","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/17/2699/25163800/btx214.pdf","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:28407034","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28407034","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx214","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx214","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/17/2699/25163800/btx214.pdf","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"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1877665694","display_name":null,"funder_award_id":"31271416","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G799726716","display_name":null,"funder_award_id":"17ZR1413900","funder_id":"https://openalex.org/F4320309612","funder_display_name":"Natural Science Foundation of Shanghai"}],"funders":[{"id":"https://openalex.org/F4320309612","display_name":"Natural Science Foundation of Shanghai","ror":null},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322999","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":51,"referenced_works":["https://openalex.org/W79846600","https://openalex.org/W173263818","https://openalex.org/W1836445285","https://openalex.org/W1970772851","https://openalex.org/W1972687707","https://openalex.org/W1980106585","https://openalex.org/W1984478556","https://openalex.org/W1989367702","https://openalex.org/W2010168796","https://openalex.org/W2013006467","https://openalex.org/W2018499609","https://openalex.org/W2027549508","https://openalex.org/W2028436965","https://openalex.org/W2037078439","https://openalex.org/W2050568232","https://openalex.org/W2055770801","https://openalex.org/W2067391852","https://openalex.org/W2068614693","https://openalex.org/W2079201545","https://openalex.org/W2079324889","https://openalex.org/W2095900642","https://openalex.org/W2100448568","https://openalex.org/W2104925243","https://openalex.org/W2107060225","https://openalex.org/W2112220625","https://openalex.org/W2112926959","https://openalex.org/W2114104545","https://openalex.org/W2114405789","https://openalex.org/W2120108543","https://openalex.org/W2120290958","https://openalex.org/W2121211805","https://openalex.org/W2130410032","https://openalex.org/W2141703917","https://openalex.org/W2144707486","https://openalex.org/W2147937603","https://openalex.org/W2148294117","https://openalex.org/W2149496508","https://openalex.org/W2152239989","https://openalex.org/W2154431984","https://openalex.org/W2154921543","https://openalex.org/W2156631105","https://openalex.org/W2158946829","https://openalex.org/W2159707944","https://openalex.org/W2278252047","https://openalex.org/W2296765310","https://openalex.org/W2314697812","https://openalex.org/W2411968388","https://openalex.org/W2808376814","https://openalex.org/W6606991606","https://openalex.org/W6638950551","https://openalex.org/W6715099694"],"related_works":["https://openalex.org/W4362511917","https://openalex.org/W2904597490","https://openalex.org/W4362530199","https://openalex.org/W4362511560","https://openalex.org/W4377231761","https://openalex.org/W4285162488","https://openalex.org/W4362512073","https://openalex.org/W4362485908","https://openalex.org/W2268123450","https://openalex.org/W2093288248"],"abstract_inverted_index":{"MOTIVATION:":[0],"RNA-seq":[1,24,83],"has":[2,77],"emerged":[3],"as":[4,57],"a":[5,58,88],"powerful":[6,59],"technology":[7],"for":[8,23,30,82,94,122],"the":[9,16,47,73,99,109,112,116,119,124,131,180,195],"detection":[10],"of":[11,98,111,118],"differential":[12,25,95],"gene":[13],"expression":[14,26,65,96],"in":[15,67,128,177],"transcriptome.":[17],"The":[18,105,201],"commonly":[19],"used":[20],"statistical":[21,75,120],"methods":[22,53],"analysis":[27,97],"were":[28,167],"designed":[29],"individual":[31],"genes,":[32],"which":[33,192],"may":[34],"detect":[35],"too":[36,42],"many":[37],"irrelevant":[38],"significantly":[39,145,156,189],"genes":[40,44],"or":[41,149],"few":[43],"to":[45,61,130,139,169,194],"interpret":[46,64],"phenotypic":[48],"changes.":[49],"Recently":[50],"network":[51,89],"module-based":[52,74,90],"have":[54],"been":[55,79],"proposed":[56,87,113],"approach":[60],"analyze":[62],"and":[63,69,115,142,164],"data":[66,102,215],"microarray":[68],"shotgun":[70],"proteomics.":[71],"But":[72],"model":[76,93,114],"not":[78],"adequately":[80],"addressed":[81],"data.":[84],"RESULT:":[85],"we":[86],"generalized":[91],"linear":[92],"count-based":[100],"sequencing":[101],"from":[103],"RNA-seq.":[104],"simulation":[106],"studies":[107],"demonstrated":[108],"effectiveness":[110],"improvement":[117],"power":[121],"identifying":[123],"differentially":[125,146,157],"expressed":[126,147,158],"modules":[127],"comparison":[129,178],"existing":[132],"methods.":[133],"We":[134],"also":[135],"applied":[136],"our":[137,184],"method":[138,185],"tissue":[140],"datasets":[141],"identified":[143],"207":[144],"kidney-active":[148],"liver-active":[150],"modules.":[151],"For":[152],"liver":[153,174,196],"cancer":[154],"datasets,":[155],"modules,":[159,191],"including":[160],"Wnt":[161],"signaling":[162],"pathway":[163],"VEGF":[165],"pathway,":[166],"found":[168],"be":[170],"tightly":[171],"associated":[172],"with":[173,179],"cancer.":[175,197],"Besides,":[176],"single":[181],"gene-level":[182],"analysis,":[183],"could":[186],"identify":[187],"more":[188],"biological":[190],"related":[193],"AVAILABILITY":[198],"AND":[199],"IMPLEMENTATION:":[200],"R":[202],"package":[203],"SeqMADE":[204],"is":[205],"available":[206,217],"at":[207,218],"https://cran.r-project.org/web/packages/SeqMADE/":[208],".":[209],"CONTACT:":[210],"jing.li@sjtu.edu.cn.":[211],"SUPPLEMENTARY":[212],"INFORMATION:":[213],"Supplementary":[214],"are":[216],"Bioinformatics":[219],"online.":[220]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
