{"id":"https://openalex.org/W3158688499","doi":"https://doi.org/10.1093/bioinformatics/btab257","title":"Identification of cell-type-specific marker genes from co-expression patterns in tissue samples","display_name":"Identification of cell-type-specific marker genes from co-expression patterns in tissue samples","publication_year":2021,"publication_date":"2021-04-24","ids":{"openalex":"https://openalex.org/W3158688499","doi":"https://doi.org/10.1093/bioinformatics/btab257","mag":"3158688499","pmid":"https://pubmed.ncbi.nlm.nih.gov/33904573"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab257","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab257","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/19/3228/40556813/btab257.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/37/19/3228/40556813/btab257.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101665647","display_name":"Yixuan Qiu","orcid":"https://orcid.org/0000-0003-0109-6692"},"institutions":[{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yixuan Qiu","raw_affiliation_strings":["Department of Statistics and Data Science, Carnegie Mellon University , Pittsburgh, PA 15213, USA"],"affiliations":[{"raw_affiliation_string":"Department of Statistics and Data Science, Carnegie Mellon University , Pittsburgh, PA 15213, USA","institution_ids":["https://openalex.org/I74973139"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042915991","display_name":"Jiebiao Wang","orcid":"https://orcid.org/0000-0003-3828-4400"},"institutions":[{"id":"https://openalex.org/I170201317","display_name":"University of Pittsburgh","ror":"https://ror.org/01an3r305","country_code":"US","type":"education","lineage":["https://openalex.org/I170201317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiebiao Wang","raw_affiliation_strings":["Department of Biostatistics, University of Pittsburgh , Pittsburgh, PA 15261, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, University of Pittsburgh , Pittsburgh, PA 15261, USA","institution_ids":["https://openalex.org/I170201317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085887576","display_name":"Jing Lei","orcid":"https://orcid.org/0000-0003-3104-9387"},"institutions":[{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jing Lei","raw_affiliation_strings":["Department of Statistics and Data Science, Carnegie Mellon University , Pittsburgh, PA 15213, USA"],"affiliations":[{"raw_affiliation_string":"Department of Statistics and Data Science, Carnegie Mellon University , Pittsburgh, PA 15213, USA","institution_ids":["https://openalex.org/I74973139"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077476842","display_name":"Kathryn Roeder","orcid":"https://orcid.org/0000-0002-8869-6254"},"institutions":[{"id":"https://openalex.org/I74973139","display_name":"Carnegie Mellon University","ror":"https://ror.org/05x2bcf33","country_code":"US","type":"education","lineage":["https://openalex.org/I74973139"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Kathryn Roeder","raw_affiliation_strings":["Computational Biology Department, Carnegie Mellon University , Pittsburgh, PA 15213, USA","Department of Statistics and Data Science, Carnegie Mellon University , Pittsburgh, PA 15213, USA"],"affiliations":[{"raw_affiliation_string":"Computational Biology Department, Carnegie Mellon University , Pittsburgh, PA 15213, USA","institution_ids":["https://openalex.org/I74973139"]},{"raw_affiliation_string":"Department of Statistics and Data Science, Carnegie Mellon University , Pittsburgh, PA 15213, USA","institution_ids":["https://openalex.org/I74973139"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5077476842","https://openalex.org/A5101665647"],"corresponding_institution_ids":["https://openalex.org/I74973139"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.8502,"has_fulltext":true,"cited_by_count":36,"citation_normalized_percentile":{"value":0.86019374,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"37","issue":"19","first_page":"3228","last_page":"3234"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9991999864578247,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9991999864578247,"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":0.9883000254631042,"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/T10604","display_name":"RNA Research and Splicing","score":0.9878000020980835,"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/gene","display_name":"Gene","score":0.7164265513420105},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.6974052786827087},{"id":"https://openalex.org/keywords/marker-gene","display_name":"Marker gene","score":0.5747596025466919},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5672547817230225},{"id":"https://openalex.org/keywords/deconvolution","display_name":"Deconvolution","score":0.5641052722930908},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5460115671157837},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.521021842956543},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.38709893822669983},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.33188414573669434},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.272141695022583},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.14407393336296082}],"concepts":[{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.7164265513420105},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.6974052786827087},{"id":"https://openalex.org/C130403756","wikidata":"https://www.wikidata.org/wiki/Q2776413","display_name":"Marker gene","level":3,"score":0.5747596025466919},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5672547817230225},{"id":"https://openalex.org/C174576160","wikidata":"https://www.wikidata.org/wiki/Q1183700","display_name":"Deconvolution","level":2,"score":0.5641052722930908},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5460115671157837},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.521021842956543},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.38709893822669983},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.33188414573669434},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.272141695022583},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.14407393336296082},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab257","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab257","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/19/3228/40556813/btab257.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33904573","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33904573","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:8504631","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8504631","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btab257","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab257","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/37/19/3228/40556813/btab257.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1184234779","display_name":null,"funder_award_id":"R01AG36042","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G1190956944","display_name":null,"funder_award_id":"U01AG46161","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G1414860548","display_name":null,"funder_award_id":"MH06692","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G1751565318","display_name":null,"funder_award_id":"RC2AG036547","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G1986238900","display_name":null,"funder_award_id":"R01MH110921","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2574961424","display_name":null,"funder_award_id":"AG05138","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2586478732","display_name":null,"funder_award_id":"R37MH057881","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2846727660","display_name":null,"funder_award_id":"DMS-2015492","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G3758152842","display_name":null,"funder_award_id":"U01AG32984","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G3959875274","display_name":null,"funder_award_id":"R01AG17917","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G406061759","display_name":null,"funder_award_id":"R01AG48015","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G4137911340","display_name":null,"funder_award_id":"R01MH085542","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4225100588","display_name":null,"funder_award_id":"P50M096891","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G433325797","display_name":null,"funder_award_id":"P50MH080405","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4460408344","display_name":null,"funder_award_id":"R01MH123184","funder_id":"https://openalex.org/F4320337346","funder_display_name":"National Institute of Mental Health"},{"id":"https://openalex.org/G4518562707","display_name":null,"funder_award_id":"P50MH066392","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5001692220","display_name":null,"funder_award_id":"R37MH057881","funder_id":"https://openalex.org/F4320337346","funder_display_name":"National Institute of Mental Health"},{"id":"https://openalex.org/G533219546","display_name":null,"funder_award_id":"DMS-1553884","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G534748997","display_name":null,"funder_award_id":"U01AG61356","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G6166194768","display_name":null,"funder_award_id":"R01AG30146","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G632647470","display_name":null,"funder_award_id":"R01MH109677","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6369998063","display_name":null,"funder_award_id":"RO1-MH-075916","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6635027732","display_name":null,"funder_award_id":"R01AG36836","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G6809039180","display_name":null,"funder_award_id":"UO1NH122681","funder_id":"https://openalex.org/F4320337346","funder_display_name":"National Institute of Mental Health"},{"id":"https://openalex.org/G6903560910","display_name":null,"funder_award_id":"R01AG15819","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G7047078138","display_name":null,"funder_award_id":"AG02219","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7536204524","display_name":null,"funder_award_id":"R01MH097276","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7601837854","display_name":null,"funder_award_id":"U01AG46152","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G7695937205","display_name":null,"funder_award_id":"RF1AG57473","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G7747155497","display_name":null,"funder_award_id":"R01MH093725","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7846843132","display_name":null,"funder_award_id":"U01MH103392","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8044459106","display_name":null,"funder_award_id":"P30AG10161","funder_id":"https://openalex.org/F4320337337","funder_display_name":"National Institute on Aging"},{"id":"https://openalex.org/G8695630221","display_name":null,"funder_award_id":"HHSN271201300031C","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8811391503","display_name":null,"funder_award_id":"P50MH084053S1","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8891563208","display_name":null,"funder_award_id":"R01MH109897","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320308102","display_name":"Illinois Department of Public Health","ror":"https://ror.org/027bk5v43"},{"id":"https://openalex.org/F4320317673","display_name":"Translational Genomics Research Institute","ror":"https://ror.org/02hfpnk21"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337337","display_name":"National Institute on Aging","ror":"https://ror.org/049v75w11"},{"id":"https://openalex.org/F4320337346","display_name":"National Institute of Mental Health","ror":"https://ror.org/04xeg9z08"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3158688499.pdf","grobid_xml":"https://content.openalex.org/works/W3158688499.grobid-xml"},"referenced_works_count":45,"referenced_works":["https://openalex.org/W1552434751","https://openalex.org/W1975900269","https://openalex.org/W1979283544","https://openalex.org/W1985987855","https://openalex.org/W2028426093","https://openalex.org/W2033642329","https://openalex.org/W2051059623","https://openalex.org/W2072673499","https://openalex.org/W2078957532","https://openalex.org/W2081837126","https://openalex.org/W2087093188","https://openalex.org/W2090384073","https://openalex.org/W2097714737","https://openalex.org/W2103804774","https://openalex.org/W2113600901","https://openalex.org/W2115521875","https://openalex.org/W2124940469","https://openalex.org/W2161643019","https://openalex.org/W2163410184","https://openalex.org/W2260830658","https://openalex.org/W2472012926","https://openalex.org/W2520696572","https://openalex.org/W2526546796","https://openalex.org/W2531904292","https://openalex.org/W2598326928","https://openalex.org/W2765616742","https://openalex.org/W2788357641","https://openalex.org/W2804633924","https://openalex.org/W2806989085","https://openalex.org/W2883439616","https://openalex.org/W2889790826","https://openalex.org/W2904647285","https://openalex.org/W2942610007","https://openalex.org/W2942678593","https://openalex.org/W2949237386","https://openalex.org/W2949506334","https://openalex.org/W2950843563","https://openalex.org/W2950886245","https://openalex.org/W2951890520","https://openalex.org/W2967063345","https://openalex.org/W3015091703","https://openalex.org/W3047102552","https://openalex.org/W3103385725","https://openalex.org/W3145087249","https://openalex.org/W6675607486"],"related_works":["https://openalex.org/W4250106855","https://openalex.org/W2037261263","https://openalex.org/W3149087629","https://openalex.org/W4231036715","https://openalex.org/W2032074591","https://openalex.org/W1986156575","https://openalex.org/W3193619106","https://openalex.org/W2751689993","https://openalex.org/W1966302070","https://openalex.org/W2064421023"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":15},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":2}],"updated_date":"2025-11-23T05:10:03.516525","created_date":"2025-10-10T00:00:00"}