{"id":"https://openalex.org/W4410106389","doi":"https://doi.org/10.1093/bioinformatics/btaf288","title":"scACCorDiON: a clustering approach for explainable patient level cell\u2013cell communication graph analysis","display_name":"scACCorDiON: a clustering approach for explainable patient level cell\u2013cell communication graph analysis","publication_year":2025,"publication_date":"2025-05-01","ids":{"openalex":"https://openalex.org/W4410106389","doi":"https://doi.org/10.1093/bioinformatics/btaf288","pmid":"https://pubmed.ncbi.nlm.nih.gov/40327499"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf288","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf288","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf288/63069981/btaf288.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf288/63069981/btaf288.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5052586638","display_name":"James S. Nagai","orcid":"https://orcid.org/0000-0002-7655-7206"},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"James S Nagai","raw_affiliation_strings":["Institute for Computational Genomics, RWTH Aachen Medical Faculty , Aachen 52074,","RWTH Aachen Medical Faculty Institute for Computational Genomics, , Pauwelsstr. 19, 52074, Aachen,"],"affiliations":[{"raw_affiliation_string":"Institute for Computational Genomics, RWTH Aachen Medical Faculty , Aachen 52074,","institution_ids":["https://openalex.org/I887968799"]},{"raw_affiliation_string":"RWTH Aachen Medical Faculty Institute for Computational Genomics, , Pauwelsstr. 19, 52074, Aachen,","institution_ids":["https://openalex.org/I887968799"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006699052","display_name":"Tiago Mai\u00e9","orcid":"https://orcid.org/0000-0003-4857-4014"},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Tiago Mai\u00e9","raw_affiliation_strings":["Institute for Computational Genomics, RWTH Aachen Medical Faculty , Aachen 52074,","RWTH Aachen Medical Faculty Institute for Computational Genomics, , Pauwelsstr. 19, 52074, Aachen,"],"affiliations":[{"raw_affiliation_string":"Institute for Computational Genomics, RWTH Aachen Medical Faculty , Aachen 52074,","institution_ids":["https://openalex.org/I887968799"]},{"raw_affiliation_string":"RWTH Aachen Medical Faculty Institute for Computational Genomics, , Pauwelsstr. 19, 52074, Aachen,","institution_ids":["https://openalex.org/I887968799"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008584000","display_name":"Michael T. Schaub","orcid":"https://orcid.org/0000-0003-2426-6404"},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Michael T Schaub","raw_affiliation_strings":["Department of Computational Science, RWTH Aachen University , Aachen 52074,","RWTH Aachen University Department of Computational Science, , Ahornstra\u00dfe. 55, 52074, Aachen,"],"affiliations":[{"raw_affiliation_string":"Department of Computational Science, RWTH Aachen University , Aachen 52074,","institution_ids":["https://openalex.org/I887968799"]},{"raw_affiliation_string":"RWTH Aachen University Department of Computational Science, , Ahornstra\u00dfe. 55, 52074, Aachen,","institution_ids":["https://openalex.org/I887968799"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5057250270","display_name":"Ivan G. Costa","orcid":"https://orcid.org/0000-0003-2890-8697"},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Ivan G Costa","raw_affiliation_strings":["Institute for Computational Genomics, RWTH Aachen Medical Faculty , Aachen 52074,","RWTH Aachen Medical Faculty Institute for Computational Genomics, , Pauwelsstr. 19, 52074, Aachen,"],"affiliations":[{"raw_affiliation_string":"Institute for Computational Genomics, RWTH Aachen Medical Faculty , Aachen 52074,","institution_ids":["https://openalex.org/I887968799"]},{"raw_affiliation_string":"RWTH Aachen Medical Faculty Institute for Computational Genomics, , Pauwelsstr. 19, 52074, Aachen,","institution_ids":["https://openalex.org/I887968799"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5052586638"],"corresponding_institution_ids":["https://openalex.org/I887968799"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.8425,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.72416045,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"41","issue":"5","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":0.9948999881744385,"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":0.9948999881744385,"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/T13052","display_name":"Molecular Communication and Nanonetworks","score":0.9314000010490417,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.6443243026733398},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5974056124687195},{"id":"https://openalex.org/keywords/cell","display_name":"Cell","score":0.5028228163719177},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4248826503753662},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3421109914779663},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3398299813270569},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.22917687892913818},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.20318129658699036},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12292951345443726}],"concepts":[{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.6443243026733398},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5974056124687195},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.5028228163719177},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4248826503753662},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3421109914779663},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3398299813270569},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.22917687892913818},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.20318129658699036},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12292951345443726}],"mesh":[{"descriptor_ui":"D000230","descriptor_name":"Adenocarcinoma","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000230","descriptor_name":"Adenocarcinoma","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000230","descriptor_name":"Adenocarcinoma","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000230","descriptor_name":"Adenocarcinoma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D000230","descriptor_name":"Adenocarcinoma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D000230","descriptor_name":"Adenocarcinoma","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D002450","descriptor_name":"Cell Communication","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D010190","descriptor_name":"Pancreatic Neoplasms","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059010","descriptor_name":"Single-Cell Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D059016","descriptor_name":"Tumor Microenvironment","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btaf288","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf288","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf288/63069981/btaf288.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40327499","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40327499","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:12122081","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12122081","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"doi:10.18154/rwth-conv-254938","is_oa":true,"landing_page_url":"https://doi.org/10.18154/rwth-conv-254938","pdf_url":null,"source":{"id":"https://openalex.org/S4306401033","display_name":"RWTH Publications (RWTH Aachen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I887968799","host_organization_name":"RWTH Aachen University","host_organization_lineage":["https://openalex.org/I887968799"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf288","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf288","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btaf288/63069981/btaf288.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.41999998688697815,"id":"https://metadata.un.org/sdg/3"}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4410106389.pdf","grobid_xml":"https://content.openalex.org/works/W4410106389.grobid-xml"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W1565746575","https://openalex.org/W1986705681","https://openalex.org/W1987971958","https://openalex.org/W2033403400","https://openalex.org/W2039715918","https://openalex.org/W2055750802","https://openalex.org/W2114104545","https://openalex.org/W2135896412","https://openalex.org/W2150593711","https://openalex.org/W2748710555","https://openalex.org/W2800392236","https://openalex.org/W2897249806","https://openalex.org/W2911279170","https://openalex.org/W2952391626","https://openalex.org/W2954610188","https://openalex.org/W2964164193","https://openalex.org/W2992151131","https://openalex.org/W2993894543","https://openalex.org/W3007935255","https://openalex.org/W3012575245","https://openalex.org/W3048451018","https://openalex.org/W3099810371","https://openalex.org/W3112914139","https://openalex.org/W3152893900","https://openalex.org/W3153732845","https://openalex.org/W3163061470","https://openalex.org/W4200524230","https://openalex.org/W4206471589","https://openalex.org/W4220976987","https://openalex.org/W4221044879","https://openalex.org/W4235169531","https://openalex.org/W4281716326","https://openalex.org/W4283588821","https://openalex.org/W4290989128","https://openalex.org/W4379879135","https://openalex.org/W4380550659","https://openalex.org/W4382394552","https://openalex.org/W4384816663","https://openalex.org/W4388900032","https://openalex.org/W4389937204","https://openalex.org/W4390974497","https://openalex.org/W4393945084","https://openalex.org/W4400113535","https://openalex.org/W4404793799","https://openalex.org/W6668990524","https://openalex.org/W6763688603"],"related_works":["https://openalex.org/W2051487156","https://openalex.org/W2073681303","https://openalex.org/W4409439182","https://openalex.org/W4298130764","https://openalex.org/W2804364458","https://openalex.org/W2053286651","https://openalex.org/W2181743346","https://openalex.org/W2187401768","https://openalex.org/W2132641928","https://openalex.org/W2181413294"],"abstract_inverted_index":{"The":[0,10],"code":[1],"of":[2],"scACCorDiON":[3],"is":[4],"available":[5],"at":[6,17],"https://scaccordion.readthedocs.io/en/latest/.":[7],"and":[8],"https://doi.org/10.5281/zenodo.15267648.":[9],"survival":[11],"analysis":[12],"package":[13],"can":[14],"be":[15],"found":[16],"https://github.com/CostaLab/scACCorDiON.su.":[18]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-05-06T00:00:00"}