{"id":"https://openalex.org/W4387583204","doi":"https://doi.org/10.1093/bib/bbad359","title":"Decoding functional cell\u2013cell communication events by multi-view graph learning on spatial transcriptomics","display_name":"Decoding functional cell\u2013cell communication events by multi-view graph learning on spatial transcriptomics","publication_year":2023,"publication_date":"2023-09-19","ids":{"openalex":"https://openalex.org/W4387583204","doi":"https://doi.org/10.1093/bib/bbad359","pmid":"https://pubmed.ncbi.nlm.nih.gov/37824741"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbad359","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad359","pdf_url":"https://academic.oup.com/bib/article-pdf/24/6/bbad359/52011710/bbad359.pdf","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":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/24/6/bbad359/52011710/bbad359.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100742025","display_name":"Haochen Li","orcid":"https://orcid.org/0000-0003-0104-8818"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haochen Li","raw_affiliation_strings":["School of Medicine, Tsinghua University , Beijing 100084 , China"],"affiliations":[{"raw_affiliation_string":"School of Medicine, Tsinghua University , Beijing 100084 , China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004057339","display_name":"Tianxing Ma","orcid":"https://orcid.org/0000-0003-3434-7013"},"institutions":[{"id":"https://openalex.org/I4210148498","display_name":"Bioinformatics Institute","ror":"https://ror.org/044w3nw43","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2801752549","https://openalex.org/I4210148498"]},{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN","SG"],"is_corresponding":false,"raw_author_name":"Tianxing Ma","raw_affiliation_strings":["MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I4210148498"]},{"raw_affiliation_string":"Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011263468","display_name":"Minsheng Hao","orcid":"https://orcid.org/0000-0001-6749-5659"},"institutions":[{"id":"https://openalex.org/I4210148498","display_name":"Bioinformatics Institute","ror":"https://ror.org/044w3nw43","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2801752549","https://openalex.org/I4210148498"]},{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN","SG"],"is_corresponding":false,"raw_author_name":"Minsheng Hao","raw_affiliation_strings":["MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I4210148498"]},{"raw_affiliation_string":"Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100679135","display_name":"Wenbo Guo","orcid":"https://orcid.org/0000-0002-7973-6795"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]},{"id":"https://openalex.org/I4210148498","display_name":"Bioinformatics Institute","ror":"https://ror.org/044w3nw43","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2801752549","https://openalex.org/I4210148498"]}],"countries":["CN","SG"],"is_corresponding":false,"raw_author_name":"Wenbo Guo","raw_affiliation_strings":["MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I4210148498"]},{"raw_affiliation_string":"Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012871103","display_name":"Jin Gu","orcid":"https://orcid.org/0000-0003-3968-8036"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]},{"id":"https://openalex.org/I4210148498","display_name":"Bioinformatics Institute","ror":"https://ror.org/044w3nw43","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2801752549","https://openalex.org/I4210148498"]}],"countries":["CN","SG"],"is_corresponding":false,"raw_author_name":"Jin Gu","raw_affiliation_strings":["MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I4210148498"]},{"raw_affiliation_string":"Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081242795","display_name":"Xuegong Zhang","orcid":"https://orcid.org/0000-0002-9684-5643"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]},{"id":"https://openalex.org/I4210148498","display_name":"Bioinformatics Institute","ror":"https://ror.org/044w3nw43","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2801752549","https://openalex.org/I4210148498"]}],"countries":["CN","SG"],"is_corresponding":true,"raw_author_name":"Xuegong Zhang","raw_affiliation_strings":["MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","School of Medicine, Tsinghua University , Beijing 100084 , China","Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I4210148498"]},{"raw_affiliation_string":"School of Medicine, Tsinghua University , Beijing 100084 , China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100634707","display_name":"Lei Wei","orcid":"https://orcid.org/0000-0002-1546-6458"},"institutions":[{"id":"https://openalex.org/I4210148498","display_name":"Bioinformatics Institute","ror":"https://ror.org/044w3nw43","country_code":"SG","type":"facility","lineage":["https://openalex.org/I115228651","https://openalex.org/I2801752549","https://openalex.org/I4210148498"]},{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN","SG"],"is_corresponding":true,"raw_author_name":"Lei Wei","raw_affiliation_strings":["MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China"],"affiliations":[{"raw_affiliation_string":"MOE Key Lab of Bioinformatics , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I4210148498"]},{"raw_affiliation_string":"Tsinghua University , Bioinformatics Division of BNRIST and Department of Automation, , Beijing 100084 , China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"MOE Key Lab of Bioinformatics, Bioinformatics Division of BNRIST and Department of Automation, Tsinghua University, Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5081242795","https://openalex.org/A5100634707"],"corresponding_institution_ids":["https://openalex.org/I4210148498","https://openalex.org/I99065089"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":7.3755,"has_fulltext":true,"cited_by_count":49,"citation_normalized_percentile":{"value":0.97814668,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"24","issue":"6","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":0.9998999834060669,"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":0.9998999834060669,"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":0.9976000189781189,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9968000054359436,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6754010915756226},{"id":"https://openalex.org/keywords/prioritization","display_name":"Prioritization","score":0.6680680513381958},{"id":"https://openalex.org/keywords/decoding-methods","display_name":"Decoding methods","score":0.46382394433021545},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.45906925201416016},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.44990333914756775},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.22729527950286865},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.11362636089324951}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6754010915756226},{"id":"https://openalex.org/C2777615720","wikidata":"https://www.wikidata.org/wiki/Q11888847","display_name":"Prioritization","level":2,"score":0.6680680513381958},{"id":"https://openalex.org/C57273362","wikidata":"https://www.wikidata.org/wiki/Q576722","display_name":"Decoding methods","level":2,"score":0.46382394433021545},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45906925201416016},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.44990333914756775},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22729527950286865},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.11362636089324951},{"id":"https://openalex.org/C539667460","wikidata":"https://www.wikidata.org/wiki/Q2414942","display_name":"Management science","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008113","descriptor_name":"Liver Neoplasms","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":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbad359","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad359","pdf_url":"https://academic.oup.com/bib/article-pdf/24/6/bbad359/52011710/bbad359.pdf","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:37824741","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37824741","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}],"best_oa_location":{"id":"doi:10.1093/bib/bbad359","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbad359","pdf_url":"https://academic.oup.com/bib/article-pdf/24/6/bbad359/52011710/bbad359.pdf","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"},"sustainable_development_goals":[{"score":0.6499999761581421,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G561745772","display_name":null,"funder_award_id":"62103227","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5797066792","display_name":null,"funder_award_id":"2021YFF1200900","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G5814160623","display_name":null,"funder_award_id":"61721003","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5836019563","display_name":null,"funder_award_id":"2019-02","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8242711524","display_name":null,"funder_award_id":"62050178","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8679641091","display_name":null,"funder_award_id":"6172100","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4387583204.pdf"},"referenced_works_count":79,"referenced_works":["https://openalex.org/W1085137","https://openalex.org/W1016059894","https://openalex.org/W1643497640","https://openalex.org/W1775622242","https://openalex.org/W1813803829","https://openalex.org/W1867576261","https://openalex.org/W1940048983","https://openalex.org/W1965498876","https://openalex.org/W1970614343","https://openalex.org/W1971687159","https://openalex.org/W1972891816","https://openalex.org/W1986471913","https://openalex.org/W2000437250","https://openalex.org/W2014993079","https://openalex.org/W2034252680","https://openalex.org/W2034966518","https://openalex.org/W2043254359","https://openalex.org/W2054280794","https://openalex.org/W2064930268","https://openalex.org/W2076583198","https://openalex.org/W2097007811","https://openalex.org/W2103526670","https://openalex.org/W2105457070","https://openalex.org/W2109334930","https://openalex.org/W2119584041","https://openalex.org/W2133943324","https://openalex.org/W2135118700","https://openalex.org/W2152544754","https://openalex.org/W2277807468","https://openalex.org/W2296024371","https://openalex.org/W2430731787","https://openalex.org/W2466464742","https://openalex.org/W2471536144","https://openalex.org/W2499376039","https://openalex.org/W2623559108","https://openalex.org/W2745768411","https://openalex.org/W2751524454","https://openalex.org/W2774784347","https://openalex.org/W2775142478","https://openalex.org/W2885789377","https://openalex.org/W2889213939","https://openalex.org/W2896334009","https://openalex.org/W2923300855","https://openalex.org/W2923648042","https://openalex.org/W2949177718","https://openalex.org/W2952583574","https://openalex.org/W2971248808","https://openalex.org/W2978551960","https://openalex.org/W2992151131","https://openalex.org/W2994401605","https://openalex.org/W3007223272","https://openalex.org/W3022836409","https://openalex.org/W3035327867","https://openalex.org/W3037826211","https://openalex.org/W3083756487","https://openalex.org/W3092318937","https://openalex.org/W3099810371","https://openalex.org/W3101456328","https://openalex.org/W3112563877","https://openalex.org/W3132661792","https://openalex.org/W3133956042","https://openalex.org/W3134482219","https://openalex.org/W3155546248","https://openalex.org/W3195383593","https://openalex.org/W3198511950","https://openalex.org/W3198879735","https://openalex.org/W4226106494","https://openalex.org/W4288758477","https://openalex.org/W4303986417","https://openalex.org/W4304128113","https://openalex.org/W4307497973","https://openalex.org/W4312094047","https://openalex.org/W4317757307","https://openalex.org/W6638563013","https://openalex.org/W6695444816","https://openalex.org/W6746859484","https://openalex.org/W6780440186","https://openalex.org/W6791452020","https://openalex.org/W6800634405"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2341492732","https://openalex.org/W2506292322","https://openalex.org/W3187193180","https://openalex.org/W106542691","https://openalex.org/W1699080303","https://openalex.org/W4297799326","https://openalex.org/W3116064965"],"abstract_inverted_index":{"Cell-cell":[0],"communication":[1,34,206],"events":[2,35],"(CEs)":[3],"are":[4],"mediated":[5],"by":[6,84,134,159],"multiple":[7,64,155],"ligand-receptor":[8],"(LR)":[9],"pairs.":[10],"Usually":[11],"only":[12],"a":[13,21,26,74,96,104,200,220],"particular":[14,27],"subset":[15],"of":[16,37,51,63,69,145,157],"CEs":[17,102],"directly":[18],"works":[19],"for":[20,47,77,117,130],"specific":[22,131,168],"downstream":[23,92,132],"response":[24],"in":[25,175,193],"microenvironment.":[28],"We":[29,72,100,138,179],"name":[30],"them":[31],"as":[32,103,219],"functional":[33],"(FCEs)":[36],"the":[38,49,61,67,115,123,128,154],"target":[39,119],"responses.":[40],"Decoding":[41],"FCE-target":[42],"gene":[43,93,120],"relations":[44],"is:":[45],"important":[46],"understanding":[48],"mechanisms":[50],"many":[52],"biological":[53,169],"processes,":[54,170],"but":[55],"has":[56],"been":[57],"intractable":[58],"due":[59],"to":[60,113,203],"mixing":[62],"factors":[65,156],"and":[66,91,126,148,164,171,183,208],"lack":[68],"direct":[70],"observations.":[71],"developed":[73,107],"method":[75,112],"HoloNet":[76,140,186,198,216],"decoding":[78],"FCEs":[79,129,158,211],"using":[80],"spatial":[81,89],"transcriptomic":[82],"data":[83],"integrating":[85],"LR":[86,162,191],"pairs,":[87],"cell-type":[88],"distribution":[90],"expression":[94,121],"into":[95],"deep":[97],"learning":[98,111],"model.":[99],"modeled":[101],"multi-view":[105],"network,":[106],"an":[108],"attention-based":[109],"graph":[110],"train":[114],"model":[116],"generating":[118],"with":[122,195],"CE":[124],"networks,":[125],"decoded":[127],"genes":[133],"interpreting":[135],"trained":[136],"models.":[137],"applied":[139],"on":[141,190],"three":[142],"Visium":[143],"datasets":[144],"breast":[146],"cancer":[147],"liver":[149],"cancer.":[150],"The":[151],"results":[152],"detangled":[153],"revealing":[160],"how":[161],"signals":[163],"cell":[165],"types":[166],"affect":[167],"specified":[172],"FCE-induced":[173],"effects":[174],"each":[176],"single":[177],"cell.":[178],"conducted":[180],"simulation":[181],"experiments":[182],"showed":[184],"that":[185,212],"is":[187,199,217],"more":[188],"reliable":[189],"prioritization":[192],"comparison":[194],"existing":[196],"methods.":[197],"powerful":[201],"tool":[202],"illustrate":[204],"cell-cell":[205],"landscapes":[207],"reveal":[209],"vital":[210],"shape":[213],"cellular":[214],"phenotypes.":[215],"available":[218],"Python":[221],"package":[222],"at":[223],"https://github.com/lhc17/HoloNet.":[224]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":24},{"year":2024,"cited_by_count":17},{"year":2023,"cited_by_count":4}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
