{"id":"https://openalex.org/W2993326835","doi":"https://doi.org/10.1186/s12859-019-3218-2","title":"A probabilistic method for leveraging functional annotations to enhance estimation of the temporal order of pathway mutations during carcinogenesis","display_name":"A probabilistic method for leveraging functional annotations to enhance estimation of the temporal order of pathway mutations during carcinogenesis","publication_year":2019,"publication_date":"2019-12-01","ids":{"openalex":"https://openalex.org/W2993326835","doi":"https://doi.org/10.1186/s12859-019-3218-2","mag":"2993326835","pmid":"https://pubmed.ncbi.nlm.nih.gov/31791231"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-3218-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3218-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3218-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3218-2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100618023","display_name":"Menghan Wang","orcid":"https://orcid.org/0000-0003-0809-8818"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Menghan Wang","raw_affiliation_strings":["Department of Statistics, University of Kentucky, Lexington, USA"],"affiliations":[{"raw_affiliation_string":"Department of Statistics, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I143302722"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112064422","display_name":"Tianxin Yu","orcid":"https://orcid.org/0009-0002-8959-1478"},"institutions":[{"id":"https://openalex.org/I1292894508","display_name":"Roswell Park Comprehensive Cancer Center","ror":"https://ror.org/0499dwk57","country_code":"US","type":"facility","lineage":["https://openalex.org/I1292894508"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tianxin Yu","raw_affiliation_strings":["Department of Molecular & Cellular Biology, Roswell Park Comprehensive Cancer Center, Buffalo, USA"],"affiliations":[{"raw_affiliation_string":"Department of Molecular & Cellular Biology, Roswell Park Comprehensive Cancer Center, Buffalo, USA","institution_ids":["https://openalex.org/I1292894508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100619675","display_name":"Jinpeng Liu","orcid":"https://orcid.org/0000-0003-4100-0237"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I2802239656","display_name":"Markey Cancer Center","ror":"https://ror.org/01dhvva97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285210727","https://openalex.org/I2802239656"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jinpeng Liu","raw_affiliation_strings":["Markey Cancer Center, University of Kentucky, Lexington, USA"],"affiliations":[{"raw_affiliation_string":"Markey Cancer Center, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I2802239656","https://openalex.org/I143302722"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100379193","display_name":"Li Chen","orcid":"https://orcid.org/0000-0001-9303-4047"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I2802239656","display_name":"Markey Cancer Center","ror":"https://ror.org/01dhvva97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285210727","https://openalex.org/I2802239656"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Li Chen","raw_affiliation_strings":["Department of Biostatistics, University of Kentucky, Lexington, USA","Markey Cancer Center, University of Kentucky, Lexington, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I143302722"]},{"raw_affiliation_string":"Markey Cancer Center, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I2802239656","https://openalex.org/I143302722"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067935460","display_name":"Arnold J. Stromberg","orcid":"https://orcid.org/0000-0003-0336-9789"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Arnold J. Stromberg","raw_affiliation_strings":["Department of Statistics, University of Kentucky, Lexington, USA"],"affiliations":[{"raw_affiliation_string":"Department of Statistics, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I143302722"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074754509","display_name":"John L. Villano","orcid":"https://orcid.org/0000-0001-5583-0093"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I2802239656","display_name":"Markey Cancer Center","ror":"https://ror.org/01dhvva97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285210727","https://openalex.org/I2802239656"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John L. Villano","raw_affiliation_strings":["Department of Internal Medicine, University of Kentucky, Lexington, USA","Markey Cancer Center, University of Kentucky, Lexington, USA"],"affiliations":[{"raw_affiliation_string":"Department of Internal Medicine, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I143302722"]},{"raw_affiliation_string":"Markey Cancer Center, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I2802239656","https://openalex.org/I143302722"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030064179","display_name":"Susanne M. Arnold","orcid":"https://orcid.org/0000-0001-6542-9551"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I2802239656","display_name":"Markey Cancer Center","ror":"https://ror.org/01dhvva97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285210727","https://openalex.org/I2802239656"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Susanne M. Arnold","raw_affiliation_strings":["Department of Internal Medicine, University of Kentucky, Lexington, USA","Markey Cancer Center, University of Kentucky, Lexington, USA"],"affiliations":[{"raw_affiliation_string":"Department of Internal Medicine, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I143302722"]},{"raw_affiliation_string":"Markey Cancer Center, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I2802239656","https://openalex.org/I143302722"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100623406","display_name":"Chunming Liu","orcid":"https://orcid.org/0000-0002-3913-4474"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I2802239656","display_name":"Markey Cancer Center","ror":"https://ror.org/01dhvva97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285210727","https://openalex.org/I2802239656"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chunming Liu","raw_affiliation_strings":["Department of Molecular & Cellular Biochemistry, University of Kentucky, Lexington, USA","Markey Cancer Center, University of Kentucky, Lexington, USA"],"affiliations":[{"raw_affiliation_string":"Department of Molecular & Cellular Biochemistry, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I143302722"]},{"raw_affiliation_string":"Markey Cancer Center, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I2802239656","https://openalex.org/I143302722"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100342205","display_name":"Chi Wang","orcid":"https://orcid.org/0000-0001-8984-4995"},"institutions":[{"id":"https://openalex.org/I143302722","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20","country_code":"US","type":"education","lineage":["https://openalex.org/I143302722"]},{"id":"https://openalex.org/I2802239656","display_name":"Markey Cancer Center","ror":"https://ror.org/01dhvva97","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1285210727","https://openalex.org/I2802239656"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chi Wang","raw_affiliation_strings":["Department of Biostatistics, University of Kentucky, Lexington, USA. chi.wang@uky.edu","Markey Cancer Center, University of Kentucky, Lexington, USA. chi.wang@uky.edu","Department of Biostatistics, University of Kentucky, Lexington, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics, University of Kentucky, Lexington, USA. chi.wang@uky.edu","institution_ids":["https://openalex.org/I143302722"]},{"raw_affiliation_string":"Markey Cancer Center, University of Kentucky, Lexington, USA. chi.wang@uky.edu","institution_ids":["https://openalex.org/I2802239656"]},{"raw_affiliation_string":"Department of Biostatistics, University of Kentucky, Lexington, USA","institution_ids":["https://openalex.org/I143302722"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5100618023"],"corresponding_institution_ids":["https://openalex.org/I143302722"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.0,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.15293298,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":98},"biblio":{"volume":"20","issue":"1","first_page":"620","last_page":"620"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9994999766349792,"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":0.9994999766349792,"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/T11369","display_name":"Genetic factors in colorectal cancer","score":0.9973999857902527,"subfield":{"id":"https://openalex.org/subfields/2734","display_name":"Pathology and Forensic Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11642","display_name":"Genomics and Rare Diseases","score":0.996999979019165,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/carcinogenesis","display_name":"Carcinogenesis","score":0.6175529360771179},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.613549530506134},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6066122651100159},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.605368971824646},{"id":"https://openalex.org/keywords/estimation","display_name":"Estimation","score":0.5644612312316895},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5326751470565796},{"id":"https://openalex.org/keywords/order","display_name":"Order (exchange)","score":0.5247709155082703},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.4741111397743225},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.358964204788208},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3542212247848511},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.33088403940200806},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.32235994935035706},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.25635552406311035},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.19839262962341309},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.156913161277771},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.0825147032737732},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.07067754864692688}],"concepts":[{"id":"https://openalex.org/C555283112","wikidata":"https://www.wikidata.org/wiki/Q1637543","display_name":"Carcinogenesis","level":3,"score":0.6175529360771179},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.613549530506134},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6066122651100159},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.605368971824646},{"id":"https://openalex.org/C96250715","wikidata":"https://www.wikidata.org/wiki/Q965330","display_name":"Estimation","level":2,"score":0.5644612312316895},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5326751470565796},{"id":"https://openalex.org/C182306322","wikidata":"https://www.wikidata.org/wiki/Q1779371","display_name":"Order (exchange)","level":2,"score":0.5247709155082703},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.4741111397743225},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.358964204788208},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3542212247848511},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.33088403940200806},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.32235994935035706},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.25635552406311035},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.19839262962341309},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.156913161277771},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0825147032737732},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.07067754864692688},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","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/C10138342","wikidata":"https://www.wikidata.org/wiki/Q43015","display_name":"Finance","level":1,"score":0.0}],"mesh":[{"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":"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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011336","descriptor_name":"Probability","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","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":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059645","descriptor_name":"Mutation Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059645","descriptor_name":"Mutation Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059645","descriptor_name":"Mutation Rate","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D063646","descriptor_name":"Carcinogenesis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D063646","descriptor_name":"Carcinogenesis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D063646","descriptor_name":"Carcinogenesis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-019-3218-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3218-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3218-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31791231","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31791231","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:76271ca4c7004e37874b957050ceb424","is_oa":true,"landing_page_url":"https://doaj.org/article/76271ca4c7004e37874b957050ceb424","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 20, Iss 1, Pp 1-12 (2019)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:6889196","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6889196","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-3218-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3218-2","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3218-2","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being","score":0.7599999904632568}],"awards":[{"id":"https://openalex.org/G2652762446","display_name":null,"funder_award_id":"UL1TR001998","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3109212256","display_name":null,"funder_award_id":"P30 CA177558","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3497591915","display_name":null,"funder_award_id":"(NIH)","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3608896873","display_name":null,"funder_award_id":"TR001998","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3981453977","display_name":null,"funder_award_id":"UL1TR001998","funder_id":"https://openalex.org/F4320309825","funder_display_name":"University of Kentucky"},{"id":"https://openalex.org/G5039681710","display_name":null,"funder_award_id":"R21CA205778","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5255565809","display_name":null,"funder_award_id":"P20GM103436-15","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G5603520613","display_name":null,"funder_award_id":"P20GM103436","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6888208216","display_name":null,"funder_award_id":"P30 CA177558","funder_id":"https://openalex.org/F4320309825","funder_display_name":"University of Kentucky"},{"id":"https://openalex.org/G7446328255","display_name":null,"funder_award_id":"GM103436","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8198795195","display_name":null,"funder_award_id":"00001","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8240978563","display_name":null,"funder_award_id":"P20GM103436","funder_id":"https://openalex.org/F4320309825","funder_display_name":"University of Kentucky"},{"id":"https://openalex.org/G8594832868","display_name":null,"funder_award_id":"study","funder_id":"https://openalex.org/F4320309825","funder_display_name":"University of Kentucky"}],"funders":[{"id":"https://openalex.org/F4320309825","display_name":"University of Kentucky","ror":"https://ror.org/02k3smh20"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2993326835.pdf","grobid_xml":"https://content.openalex.org/works/W2993326835.grobid-xml"},"referenced_works_count":45,"referenced_works":["https://openalex.org/W1561405118","https://openalex.org/W1598410563","https://openalex.org/W1911343030","https://openalex.org/W1984853417","https://openalex.org/W2031674672","https://openalex.org/W2036821522","https://openalex.org/W2042536531","https://openalex.org/W2059145105","https://openalex.org/W2059684559","https://openalex.org/W2061285646","https://openalex.org/W2064977507","https://openalex.org/W2073294762","https://openalex.org/W2088735033","https://openalex.org/W2089335658","https://openalex.org/W2098608887","https://openalex.org/W2101354849","https://openalex.org/W2109077054","https://openalex.org/W2109816625","https://openalex.org/W2109860416","https://openalex.org/W2111326065","https://openalex.org/W2111874706","https://openalex.org/W2139526755","https://openalex.org/W2143238378","https://openalex.org/W2144847592","https://openalex.org/W2146633923","https://openalex.org/W2154444902","https://openalex.org/W2158619663","https://openalex.org/W2159482845","https://openalex.org/W2262414037","https://openalex.org/W2309067861","https://openalex.org/W2340974016","https://openalex.org/W2346273585","https://openalex.org/W2562809264","https://openalex.org/W2586629973","https://openalex.org/W2588969809","https://openalex.org/W2591434643","https://openalex.org/W2592761229","https://openalex.org/W2610167300","https://openalex.org/W2795913084","https://openalex.org/W2797931455","https://openalex.org/W2899369166","https://openalex.org/W2913421577","https://openalex.org/W2914959486","https://openalex.org/W4211001330","https://openalex.org/W4294216483"],"related_works":["https://openalex.org/W1967821671","https://openalex.org/W3030842346","https://openalex.org/W2494523064","https://openalex.org/W2943623134","https://openalex.org/W1969795570","https://openalex.org/W2125789691","https://openalex.org/W2215759665","https://openalex.org/W2063781606","https://openalex.org/W4290263427","https://openalex.org/W2024289194"],"abstract_inverted_index":{"PATOPA":[0],"provides":[1],"a":[2],"useful":[3],"tool":[4],"to":[5],"estimate":[6],"temporal":[7],"order":[8],"of":[9,19],"mutations":[10],"at":[11],"the":[12],"pathway":[13],"level":[14],"while":[15],"leveraging":[16],"functional":[17],"annotations":[18],"mutations.":[20]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":4}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
