{"id":"https://openalex.org/W4200546528","doi":"https://doi.org/10.1371/journal.pcbi.1009036","title":"Statistical tests for intra-tumour clonal co-occurrence and exclusivity","display_name":"Statistical tests for intra-tumour clonal co-occurrence and exclusivity","publication_year":2021,"publication_date":"2021-12-15","ids":{"openalex":"https://openalex.org/W4200546528","doi":"https://doi.org/10.1371/journal.pcbi.1009036","pmid":"https://pubmed.ncbi.nlm.nih.gov/34910733"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1009036","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009036","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009036&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009036&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5038666930","display_name":"Jack Kuipers","orcid":"https://orcid.org/0000-0001-5357-2705"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Jack Kuipers","raw_affiliation_strings":["Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Basel, Switzerland"],"raw_orcid":"https://orcid.org/0000-0001-5357-2705","affiliations":[{"raw_affiliation_string":"Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Basel, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072169954","display_name":"Ariane L. Moore","orcid":"https://orcid.org/0000-0001-7831-5115"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Ariane L. Moore","raw_affiliation_strings":["Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Basel, Switzerland"],"raw_orcid":"https://orcid.org/0000-0001-7831-5115","affiliations":[{"raw_affiliation_string":"Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Basel, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102807386","display_name":"Katharina Jahn","orcid":"https://orcid.org/0000-0002-6983-4615"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Katharina Jahn","raw_affiliation_strings":["Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Basel, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-6983-4615","affiliations":[{"raw_affiliation_string":"Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Basel, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053110552","display_name":"Peter Schraml","orcid":"https://orcid.org/0000-0002-0087-2744"},"institutions":[{"id":"https://openalex.org/I4210100468","display_name":"University Hospital of Zurich","ror":"https://ror.org/01462r250","country_code":"CH","type":"funder","lineage":["https://openalex.org/I4210100468"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Peter Schraml","raw_affiliation_strings":["Department of Pathology and Molecular Pathology, University and University Hospital Zurich, Zurich, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-0087-2744","affiliations":[{"raw_affiliation_string":"Department of Pathology and Molecular Pathology, University and University Hospital Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I4210100468"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101252657","display_name":"Feng Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I1343551460","display_name":"The University of Texas MD Anderson Cancer Center","ror":"https://ror.org/04twxam07","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343551460"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Feng Wang","raw_affiliation_strings":["Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I1343551460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046517633","display_name":"Kiyomi Morita","orcid":"https://orcid.org/0000-0002-0407-1565"},"institutions":[{"id":"https://openalex.org/I1343551460","display_name":"The University of Texas MD Anderson Cancer Center","ror":"https://ror.org/04twxam07","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343551460"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kiyomi Morita","raw_affiliation_strings":["Department of Leukemia, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-0407-1565","affiliations":[{"raw_affiliation_string":"Department of Leukemia, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I1343551460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067102201","display_name":"P. Andrew Futreal","orcid":"https://orcid.org/0000-0001-8663-2671"},"institutions":[{"id":"https://openalex.org/I1343551460","display_name":"The University of Texas MD Anderson Cancer Center","ror":"https://ror.org/04twxam07","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343551460"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"P. Andrew Futreal","raw_affiliation_strings":["Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I1343551460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051949215","display_name":"Koichi Takahashi","orcid":"https://orcid.org/0000-0002-8027-9659"},"institutions":[{"id":"https://openalex.org/I1343551460","display_name":"The University of Texas MD Anderson Cancer Center","ror":"https://ror.org/04twxam07","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1343551460"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Koichi Takahashi","raw_affiliation_strings":["Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America","Department of Leukemia, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America"],"raw_orcid":"https://orcid.org/0000-0002-8027-9659","affiliations":[{"raw_affiliation_string":"Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I1343551460"]},{"raw_affiliation_string":"Department of Leukemia, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I1343551460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053668445","display_name":"Christian Beisel","orcid":"https://orcid.org/0000-0001-5360-2193"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Christian Beisel","raw_affiliation_strings":["Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076510325","display_name":"Holger Moch","orcid":"https://orcid.org/0000-0002-7986-2839"},"institutions":[{"id":"https://openalex.org/I4210100468","display_name":"University Hospital of Zurich","ror":"https://ror.org/01462r250","country_code":"CH","type":"funder","lineage":["https://openalex.org/I4210100468"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Holger Moch","raw_affiliation_strings":["Department of Pathology and Molecular Pathology, University and University Hospital Zurich, Zurich, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Molecular Pathology, University and University Hospital Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I4210100468"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035497488","display_name":"Niko Beerenwinkel","orcid":"https://orcid.org/0000-0002-0573-6119"},"institutions":[{"id":"https://openalex.org/I12708293","display_name":"SIB Swiss Institute of Bioinformatics","ror":"https://ror.org/002n09z45","country_code":"CH","type":"nonprofit","lineage":["https://openalex.org/I12708293"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Niko Beerenwinkel","raw_affiliation_strings":["Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","SIB Swiss Institute of Bioinformatics, Basel, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-0573-6119","affiliations":[{"raw_affiliation_string":"Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland","institution_ids":["https://openalex.org/I35440088"]},{"raw_affiliation_string":"SIB Swiss Institute of Bioinformatics, Basel, Switzerland","institution_ids":["https://openalex.org/I12708293"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":11,"corresponding_author_ids":["https://openalex.org/A5035497488"],"corresponding_institution_ids":["https://openalex.org/I12708293","https://openalex.org/I35440088"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2607,"currency":"EUR","value_usd":2811},"fwci":0.8841,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.69791203,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"17","issue":"12","first_page":"e1009036","last_page":"e1009036"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9976000189781189,"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/T10309","display_name":"Acute Myeloid Leukemia Research","score":0.9904999732971191,"subfield":{"id":"https://openalex.org/subfields/2720","display_name":"Hematology"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7809590101242065},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5731778144836426},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5475209951400757},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.509126603603363},{"id":"https://openalex.org/keywords/phenotype","display_name":"Phenotype","score":0.47889938950538635},{"id":"https://openalex.org/keywords/somatic-evolution-in-cancer","display_name":"Somatic evolution in cancer","score":0.47555869817733765},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4203304946422577},{"id":"https://openalex.org/keywords/myeloid","display_name":"Myeloid","score":0.41536498069763184},{"id":"https://openalex.org/keywords/cancer-research","display_name":"Cancer research","score":0.2521269917488098}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7809590101242065},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5731778144836426},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5475209951400757},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.509126603603363},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.47889938950538635},{"id":"https://openalex.org/C113968399","wikidata":"https://www.wikidata.org/wiki/Q7559241","display_name":"Somatic evolution in cancer","level":3,"score":0.47555869817733765},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4203304946422577},{"id":"https://openalex.org/C2779282312","wikidata":"https://www.wikidata.org/wiki/Q1956561","display_name":"Myeloid","level":2,"score":0.41536498069763184},{"id":"https://openalex.org/C502942594","wikidata":"https://www.wikidata.org/wiki/Q3421914","display_name":"Cancer research","level":1,"score":0.2521269917488098}],"mesh":[{"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":"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":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D015470","descriptor_name":"Leukemia, Myeloid, Acute","qualifier_ui":"Q000473","qualifier_name":"pathology","is_major_topic":true},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1371/journal.pcbi.1009036","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009036","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009036&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:34910733","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34910733","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":"PLoS computational biology","raw_type":null},{"id":"pmh:doi:10.5167/uzh-211113","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4406922384","display_name":"Open MIND","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:e99cbb4fb35d4870a878164193d88cb4","is_oa":true,"landing_page_url":"https://doaj.org/article/e99cbb4fb35d4870a878164193d88cb4","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 17, Iss 12, p e1009036 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8716063","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8716063","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:www.research-collection.ethz.ch:20.500.11850/522239","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/522239","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"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":"PLoS Computational Biology, 17 (12)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"doi:10.3929/ethz-b-000522239","is_oa":true,"landing_page_url":"https://doi.org/10.3929/ethz-b-000522239","pdf_url":null,"source":{"id":"https://openalex.org/S7407051236","display_name":"ETH Z\u00fcrich Research Collection","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1009036","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1009036","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1009036&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.7200000286102295,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"awards":[{"id":"https://openalex.org/G5634912941","display_name":null,"funder_award_id":"SXPHI0_142005","funder_id":"https://openalex.org/F4320327577","funder_display_name":"SystemsX.ch"},{"id":"https://openalex.org/G7516160132","display_name":null,"funder_award_id":"Synergy Grant 609883","funder_id":"https://openalex.org/F4320334678","funder_display_name":"European Research Council"},{"id":"https://openalex.org/G8961351845","display_name":null,"funder_award_id":"310030_166391","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"}],"funders":[{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"},{"id":"https://openalex.org/F4320327577","display_name":"SystemsX.ch","ror":"https://ror.org/02s09gf16"},{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320334678","display_name":"European Research Council","ror":"https://ror.org/0472cxd90"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4200546528.pdf","grobid_xml":"https://content.openalex.org/works/W4200546528.grobid-xml"},"referenced_works_count":52,"referenced_works":["https://openalex.org/W1572656384","https://openalex.org/W1616621689","https://openalex.org/W1911343030","https://openalex.org/W1966245674","https://openalex.org/W1968295028","https://openalex.org/W1975627108","https://openalex.org/W1986727868","https://openalex.org/W2018288777","https://openalex.org/W2022488821","https://openalex.org/W2023560061","https://openalex.org/W2033666853","https://openalex.org/W2041993682","https://openalex.org/W2045953361","https://openalex.org/W2046650031","https://openalex.org/W2067256262","https://openalex.org/W2076356973","https://openalex.org/W2088405051","https://openalex.org/W2090461073","https://openalex.org/W2090932363","https://openalex.org/W2095412173","https://openalex.org/W2110065044","https://openalex.org/W2111645707","https://openalex.org/W2123303153","https://openalex.org/W2127771118","https://openalex.org/W2133811295","https://openalex.org/W2141545130","https://openalex.org/W2141811925","https://openalex.org/W2145490623","https://openalex.org/W2154444902","https://openalex.org/W2163859522","https://openalex.org/W2172170762","https://openalex.org/W2270380494","https://openalex.org/W2346273585","https://openalex.org/W2562809264","https://openalex.org/W2586389371","https://openalex.org/W2614040375","https://openalex.org/W2767281692","https://openalex.org/W2797282777","https://openalex.org/W2900718904","https://openalex.org/W2940982798","https://openalex.org/W2949945841","https://openalex.org/W2952051154","https://openalex.org/W3004167284","https://openalex.org/W3012767391","https://openalex.org/W3023438254","https://openalex.org/W3039949738","https://openalex.org/W3093815480","https://openalex.org/W3094802395","https://openalex.org/W3122308234","https://openalex.org/W3158026806","https://openalex.org/W4298032220","https://openalex.org/W6822120570"],"related_works":["https://openalex.org/W2127106769","https://openalex.org/W1840542775","https://openalex.org/W2416830231","https://openalex.org/W3003578468","https://openalex.org/W2336657400","https://openalex.org/W1483913375","https://openalex.org/W2088351705","https://openalex.org/W179926425","https://openalex.org/W2551532359","https://openalex.org/W2011710527"],"abstract_inverted_index":{"Tumour":[0],"progression":[1,27],"is":[2,114],"an":[3],"evolutionary":[4,120],"process":[5],"in":[6,38,83],"which":[7],"different":[8,60],"clones":[9,19,61],"evolve":[10],"over":[11,45],"time,":[12],"leading":[13],"to":[14,75,102,108,116,127],"intra-tumour":[15],"heterogeneity.":[16],"Interactions":[17],"between":[18,58],"can":[20],"affect":[21],"tumour":[22],"evolution":[23],"and":[24,28,96,145],"hence":[25],"disease":[26],"treatment":[29],"outcome.":[30],"Intra-tumoural":[31],"pairs":[32,79,154],"of":[33,48,54,86,131,134,158],"mutations":[34],"that":[35,80,107],"are":[36,81],"overrepresented":[37],"a":[39,46,55,68,132],"co-occurring":[40,144],"or":[41],"clonally":[42,143,147,152],"exclusive":[43,148,153],"fashion":[44],"cohort":[47,133],"patient":[49],"samples":[50],"may":[51],"be":[52],"suggestive":[53],"synergistic":[56],"effect":[57],"the":[59,87,119,128,159],"carrying":[62],"these":[63],"mutations.":[64],"We":[65,90],"therefore":[66],"developed":[67],"novel":[69],"statistical":[70],"testing":[71],"framework,":[72],"called":[73],"GeneAccord,":[74],"identify":[76],"such":[77],"gene":[78,149],"altered":[82],"distinct":[84],"subclones":[85],"same":[88],"tumour.":[89],"analysed":[91],"our":[92],"framework":[93],"for":[94,118],"calibration":[95],"power.":[97],"By":[98],"comparing":[99],"its":[100],"performance":[101],"baseline":[103],"methods,":[104],"we":[105,140],"demonstrate":[106],"control":[109],"type":[110],"I":[111],"errors,":[112],"it":[113],"essential":[115],"account":[117],"dependencies":[121],"among":[122],"clones.":[123],"In":[124],"applying":[125],"GeneAccord":[126],"single-cell":[129],"sequencing":[130],"123":[135],"acute":[136],"myeloid":[137],"leukaemia":[138],"patients,":[139],"find":[141],"1":[142],"8":[146],"pairs.":[150],"The":[151],"mostly":[155],"involve":[156],"genes":[157],"key":[160],"signalling":[161],"pathways.":[162]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}