{"id":"https://openalex.org/W3106804241","doi":"https://doi.org/10.1093/bib/bbaa307","title":"SSMD: a semi-supervised approach for a robust cell type identification and deconvolution of mouse transcriptomics data","display_name":"SSMD: a semi-supervised approach for a robust cell type identification and deconvolution of mouse transcriptomics data","publication_year":2020,"publication_date":"2020-10-12","ids":{"openalex":"https://openalex.org/W3106804241","doi":"https://doi.org/10.1093/bib/bbaa307","mag":"3106804241","pmid":"https://pubmed.ncbi.nlm.nih.gov/33230549"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaa307","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbaa307","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in 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/8294548","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5063513231","display_name":"Xiaoyu Lu","orcid":"https://orcid.org/0000-0002-6211-6215"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Xiaoyu Lu","raw_affiliation_strings":["Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","Department of Medical and Molecular Genetics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Department of Medical and Molecular Genetics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063513231","display_name":"Xiaoyu Lu","orcid":"https://orcid.org/0000-0002-6211-6215"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiaoyu Lu","raw_affiliation_strings":["Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","Department of Medical and Molecular Genetics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Department of Medical and Molecular Genetics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048080013","display_name":"Szu-wei Tu","orcid":null},"institutions":[{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Szu-Wei Tu","raw_affiliation_strings":["Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","Department of Electrical and Computer Engineering, Purdue University"],"affiliations":[{"raw_affiliation_string":"Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Purdue University","institution_ids":["https://openalex.org/I219193219"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049482017","display_name":"Wennan Chang","orcid":"https://orcid.org/0000-0001-8113-8252"},"institutions":[{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wennan Chang","raw_affiliation_strings":["Department of Electrical and Computer Engineering, Purdue University"],"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Purdue University","institution_ids":["https://openalex.org/I219193219"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037501161","display_name":"Changlin Wan","orcid":"https://orcid.org/0000-0002-6106-7175"},"institutions":[{"id":"https://openalex.org/I219193219","display_name":"Purdue University West Lafayette","ror":"https://ror.org/02dqehb95","country_code":"US","type":"education","lineage":["https://openalex.org/I219193219"]},{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Changlin Wan","raw_affiliation_strings":["Department of Electrical and Computer Engineering, Purdue University","Biomedical Data Research Data (BDRD) Lab at Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Purdue University","institution_ids":["https://openalex.org/I219193219"]},{"raw_affiliation_string":"Biomedical Data Research Data (BDRD) Lab at Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115580339","display_name":"Jiashi Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiashi Wang","raw_affiliation_strings":["Biomedical Data Research Data (BDRD) Lab at Indiana University School of Medicine","Department of Biostatistics and a member of the Center for Computational Biology and Bioinformatics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Biomedical Data Research Data (BDRD) Lab at Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]},{"raw_affiliation_string":"Department of Biostatistics and a member of the Center for Computational Biology and Bioinformatics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101528564","display_name":"Yong Zang","orcid":"https://orcid.org/0000-0001-5036-5815"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yong Zang","raw_affiliation_strings":["Department of Biostatistics and a member of the Center for Computational Biology and Bioinformatics, Indiana University School of Medicine","Department of Pediatrics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics and a member of the Center for Computational Biology and Bioinformatics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]},{"raw_affiliation_string":"Department of Pediatrics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054139346","display_name":"Baskar Ramdas","orcid":null},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Baskar Ramdas","raw_affiliation_strings":["Department of Pediatrics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035841414","display_name":"Reuben Kapur","orcid":"https://orcid.org/0000-0003-2225-1700"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Reuben Kapur","raw_affiliation_strings":["Department of Pediatrics, Indiana University School of Medicine","Department of Medical and Molecular Genetics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]},{"raw_affiliation_string":"Department of Medical and Molecular Genetics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081753593","display_name":"Xiongbin Lu","orcid":"https://orcid.org/0000-0002-7987-9825"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiongbin Lu","raw_affiliation_strings":["Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","Department of Medical and Molecular Genetics, Indiana University School of Medicine","Computational Biology and Bioinformatics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Department of Medical and Molecular Genetics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]},{"raw_affiliation_string":"Computational Biology and Bioinformatics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081753593","display_name":"Xiongbin Lu","orcid":"https://orcid.org/0000-0002-7987-9825"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Xiongbin Lu","raw_affiliation_strings":["Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","Department of Medical and Molecular Genetics, Indiana University School of Medicine","Center for Computational Biology and Bioinformatics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Department of BioHealth Informatics, Indiana University\u2212Purdue University Indianapolis","institution_ids":["https://openalex.org/I55769427"]},{"raw_affiliation_string":"Department of Medical and Molecular Genetics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]},{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042749306","display_name":"Sha Cao","orcid":"https://orcid.org/0000-0002-8645-848X"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Sha Cao","raw_affiliation_strings":["Computational Biology and Bioinformatics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Computational Biology and Bioinformatics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012408594","display_name":"Chi Zhang","orcid":"https://orcid.org/0000-0001-9553-0925"},"institutions":[{"id":"https://openalex.org/I4394709130","display_name":"Indiana University School of Medicine","ror":"https://ror.org/02ets8c94","country_code":null,"type":"education","lineage":["https://openalex.org/I4394709130","https://openalex.org/I592451"]},{"id":"https://openalex.org/I592451","display_name":"Indiana University","ror":"https://ror.org/01kg8sb98","country_code":"US","type":"education","lineage":["https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Chi Zhang","raw_affiliation_strings":["Center for Computational Biology and Bioinformatics, Indiana University School of Medicine"],"affiliations":[{"raw_affiliation_string":"Center for Computational Biology and Bioinformatics, Indiana University School of Medicine","institution_ids":["https://openalex.org/I592451","https://openalex.org/I4394709130"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5012408594","https://openalex.org/A5042749306","https://openalex.org/A5063513231","https://openalex.org/A5081753593"],"corresponding_institution_ids":["https://openalex.org/I4394709130","https://openalex.org/I55769427","https://openalex.org/I592451"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.2507,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.55182025,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"22","issue":"4","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9997000098228455,"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":0.9997000098228455,"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/T11266","display_name":"Neuroinflammation and Neurodegeneration Mechanisms","score":0.9908000230789185,"subfield":{"id":"https://openalex.org/subfields/2808","display_name":"Neurology"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9902999997138977,"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/deconvolution","display_name":"Deconvolution","score":0.8634165525436401},{"id":"https://openalex.org/keywords/cell-type","display_name":"Cell type","score":0.6600797176361084},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5193561315536499},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5052085518836975},{"id":"https://openalex.org/keywords/data-type","display_name":"Data type","score":0.47259196639060974},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46712642908096313},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4598461389541626},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.45768940448760986},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.449594646692276},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3554971516132355},{"id":"https://openalex.org/keywords/cell","display_name":"Cell","score":0.34650373458862305},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2239062786102295},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.19590172171592712}],"concepts":[{"id":"https://openalex.org/C174576160","wikidata":"https://www.wikidata.org/wiki/Q1183700","display_name":"Deconvolution","level":2,"score":0.8634165525436401},{"id":"https://openalex.org/C189014844","wikidata":"https://www.wikidata.org/wiki/Q189118","display_name":"Cell type","level":3,"score":0.6600797176361084},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5193561315536499},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5052085518836975},{"id":"https://openalex.org/C138958017","wikidata":"https://www.wikidata.org/wiki/Q190087","display_name":"Data type","level":2,"score":0.47259196639060974},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46712642908096313},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4598461389541626},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.45768940448760986},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.449594646692276},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3554971516132355},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.34650373458862305},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2239062786102295},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.19590172171592712},{"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/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000943","descriptor_name":"Antigens, Differentiation","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":true},{"descriptor_ui":"D000943","descriptor_name":"Antigens, Differentiation","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":true},{"descriptor_ui":"D000943","descriptor_name":"Antigens, Differentiation","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":true},{"descriptor_ui":"D000943","descriptor_name":"Antigens, Differentiation","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":true},{"descriptor_ui":"D000943","descriptor_name":"Antigens, Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000943","descriptor_name":"Antigens, Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000943","descriptor_name":"Antigens, Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000943","descriptor_name":"Antigens, Differentiation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D009928","descriptor_name":"Organ Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009928","descriptor_name":"Organ Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009928","descriptor_name":"Organ Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009928","descriptor_name":"Organ Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060833","descriptor_name":"Cellular Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060833","descriptor_name":"Cellular Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060833","descriptor_name":"Cellular Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060833","descriptor_name":"Cellular Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbaa307","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbaa307","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33230549","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33230549","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:8294548","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8294548","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":"Brief Bioinform","raw_type":"Text"},{"id":"pmh:oai:scholarworks.indianapolis.iu.edu:1805/32113","is_oa":false,"landing_page_url":"https://hdl.handle.net/1805/32113","pdf_url":null,"source":{"id":"https://openalex.org/S4306400987","display_name":"IUScholarWorks (Indiana University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I592451","host_organization_name":"Indiana University","host_organization_lineage":["https://openalex.org/I592451"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PMC","raw_type":"Article"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:8294548","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8294548","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":"Brief Bioinform","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1186457601","display_name":null,"funder_award_id":"#1R01GM131399-01","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":53,"referenced_works":["https://openalex.org/W1525464385","https://openalex.org/W1985987855","https://openalex.org/W1994558330","https://openalex.org/W1995363983","https://openalex.org/W2028426093","https://openalex.org/W2039328462","https://openalex.org/W2094238140","https://openalex.org/W2107665951","https://openalex.org/W2108572417","https://openalex.org/W2144642115","https://openalex.org/W2161643019","https://openalex.org/W2169456326","https://openalex.org/W2415341492","https://openalex.org/W2461410982","https://openalex.org/W2507880739","https://openalex.org/W2528543174","https://openalex.org/W2579440183","https://openalex.org/W2600132724","https://openalex.org/W2612519453","https://openalex.org/W2788348358","https://openalex.org/W2789878273","https://openalex.org/W2794480084","https://openalex.org/W2810495826","https://openalex.org/W2901677030","https://openalex.org/W2912664120","https://openalex.org/W2921330004","https://openalex.org/W2942610007","https://openalex.org/W2949177718","https://openalex.org/W2952240309","https://openalex.org/W2952383043","https://openalex.org/W2953347632","https://openalex.org/W2965118801","https://openalex.org/W2972737141","https://openalex.org/W2984614519","https://openalex.org/W2995108395","https://openalex.org/W2997428384","https://openalex.org/W3006200234","https://openalex.org/W3021112849","https://openalex.org/W3029003148","https://openalex.org/W3037348071","https://openalex.org/W3046270167","https://openalex.org/W3094160446","https://openalex.org/W3109650446","https://openalex.org/W4213108508","https://openalex.org/W6681431751","https://openalex.org/W6683733729","https://openalex.org/W6752411321","https://openalex.org/W6756134146","https://openalex.org/W6770914065","https://openalex.org/W6771847612","https://openalex.org/W6778054452","https://openalex.org/W6779843653","https://openalex.org/W6786638945"],"related_works":["https://openalex.org/W4307993920","https://openalex.org/W1898241694","https://openalex.org/W4390695629","https://openalex.org/W2036616013","https://openalex.org/W3157307916","https://openalex.org/W2141091415","https://openalex.org/W2786822253","https://openalex.org/W4401169882","https://openalex.org/W4386916799","https://openalex.org/W2101753987"],"abstract_inverted_index":{"Deconvolution":[0,43],"of":[1,111,131,138,158,175,204],"mouse":[2,11,49,112,132,139],"transcriptomic":[3],"data":[4,34,42,63,149],"is":[5,53,95],"challenged":[6],"by":[7,55,124],"the":[8,48,109,156],"fact":[9],"that":[10,94],"models":[12],"carry":[13],"various":[14],"genetic":[15],"and":[16,27,78,120,128,146,151,172,181,188,200],"physiological":[17],"perturbations,":[18],"making":[19],"it":[20],"questionable":[21],"to":[22,46,61,88,97,154],"assume":[23],"fixed":[24],"cell":[25,28,65,76,90,118,160,186,190],"types":[26,77,119,161,187],"type":[29,66,91],"marker":[30,80,121],"genes":[31,122],"for":[32,74],"different":[33],"set":[35],"scenarios.":[36],"We":[37],"developed":[38],"a":[39,57,70,83,201],"Semi-Supervised":[40],"Mouse":[41],"(SSMD)":[44],"method":[45,60,87],"study":[47],"tissue":[50,113],"microenvironment.":[51],"SSMD":[52,103,176,205],"featured":[54],"(i)":[56,116],"novel":[58],"nonparametric":[59],"discover":[62],"set-specific":[64],"signature":[67],"genes;":[68,81],"(ii)":[69,134],"community":[71],"detection":[72],"approach":[73],"fixing":[75],"their":[79],"(iii)":[82,142],"constrained":[84],"matrix":[85],"decomposition":[86],"solve":[89],"relative":[92],"proportions":[93,191],"robust":[96],"diverse":[98,135],"experimental":[99,136,173],"platforms.":[100],"In":[101,170],"summary,":[102],"addressed":[104],"several":[105],"key":[106],"challenges":[107],"in":[108,162,183],"deconvolution":[110],"data,":[114],"including:":[115],"varied":[117],"caused":[123],"highly":[125],"divergent":[126],"genotypic":[127],"phenotypic":[129],"conditions":[130],"experiment;":[133],"platforms":[137],"transcriptomics":[140],"data;":[141],"small":[143],"sample":[144],"size":[145],"limited":[147],"training":[148],"source":[150],"(iv)":[152],"capable":[153],"estimate":[155],"proportion":[157],"35":[159],"blood,":[163],"inflammatory,":[164],"central":[165],"nervous":[166],"or":[167],"hematopoietic":[168],"systems.":[169],"silico":[171],"validation":[174],"demonstrated":[177],"its":[178],"high":[179],"sensitivity":[180],"accuracy":[182],"identifying":[184],"(sub)":[185],"predicting":[189],"comparing":[192],"with":[193],"state-of-the-arts":[194],"methods.":[195],"A":[196],"user-friendly":[197],"R":[198],"package":[199],"web":[202],"server":[203],"are":[206],"released":[207],"via":[208],"https://github.com/xiaoyulu95/SSMD.":[209]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-04-04T06:10:10.580331","created_date":"2025-10-10T00:00:00"}
