{"id":"https://openalex.org/W2159522138","doi":"https://doi.org/10.1093/bioinformatics/btr357","title":"CHASM and SNVBox: toolkit for detecting biologically important single nucleotide mutations in cancer","display_name":"CHASM and SNVBox: toolkit for detecting biologically important single nucleotide mutations in cancer","publication_year":2011,"publication_date":"2011-06-17","ids":{"openalex":"https://openalex.org/W2159522138","doi":"https://doi.org/10.1093/bioinformatics/btr357","mag":"2159522138","pmid":"https://pubmed.ncbi.nlm.nih.gov/21685053"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btr357","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr357","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/15/2147/13846322/btr357.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/27/15/2147/13846322/btr357.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051627312","display_name":"Wing Chung Wong","orcid":null},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]},{"id":"https://openalex.org/I4210122574","display_name":"In Silico Biosciences (United States)","ror":"https://ror.org/02xnk0c33","country_code":"US","type":"company","lineage":["https://openalex.org/I4210122574"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wing Chung Wong","raw_affiliation_strings":["1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I185103710","https://openalex.org/I4210122574"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088232181","display_name":"Dewey Kim","orcid":null},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]},{"id":"https://openalex.org/I4210122574","display_name":"In Silico Biosciences (United States)","ror":"https://ror.org/02xnk0c33","country_code":"US","type":"company","lineage":["https://openalex.org/I4210122574"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dewey Kim","raw_affiliation_strings":["1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I185103710","https://openalex.org/I4210122574"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101461760","display_name":"Hannah Carter","orcid":"https://orcid.org/0000-0002-1729-2463"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]},{"id":"https://openalex.org/I4210122574","display_name":"In Silico Biosciences (United States)","ror":"https://ror.org/02xnk0c33","country_code":"US","type":"company","lineage":["https://openalex.org/I4210122574"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hannah Carter","raw_affiliation_strings":["1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I185103710","https://openalex.org/I4210122574"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054009720","display_name":"Mark Diekhans","orcid":"https://orcid.org/0000-0002-0430-0989"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]},{"id":"https://openalex.org/I4210122574","display_name":"In Silico Biosciences (United States)","ror":"https://ror.org/02xnk0c33","country_code":"US","type":"company","lineage":["https://openalex.org/I4210122574"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mark Diekhans","raw_affiliation_strings":["1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I185103710","https://openalex.org/I4210122574"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063865589","display_name":"Micha\u00ebl Ryan","orcid":"https://orcid.org/0000-0003-4585-7174"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]},{"id":"https://openalex.org/I4210122574","display_name":"In Silico Biosciences (United States)","ror":"https://ror.org/02xnk0c33","country_code":"US","type":"company","lineage":["https://openalex.org/I4210122574"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael C. Ryan","raw_affiliation_strings":["1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I185103710","https://openalex.org/I4210122574"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034118773","display_name":"Rachel Karchin","orcid":"https://orcid.org/0000-0002-5069-1239"},"institutions":[{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]},{"id":"https://openalex.org/I4210122574","display_name":"In Silico Biosciences (United States)","ror":"https://ror.org/02xnk0c33","country_code":"US","type":"company","lineage":["https://openalex.org/I4210122574"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Rachel Karchin","raw_affiliation_strings":["1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Biomedical Engineering and Institute for Computational Medicine, Johns Hopkins University, Baltimore, MD, 2Center for Biomolecular Science and Engineering, University of California, Santa Cruz, CA and 3In Silico Solutions, Fairfax, VA, USA","institution_ids":["https://openalex.org/I145311948","https://openalex.org/I185103710","https://openalex.org/I4210122574"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5034118773"],"corresponding_institution_ids":["https://openalex.org/I145311948","https://openalex.org/I185103710","https://openalex.org/I4210122574"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":4.8163,"has_fulltext":false,"cited_by_count":141,"citation_normalized_percentile":{"value":0.95561167,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"27","issue":"15","first_page":"2147","last_page":"2148"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11642","display_name":"Genomics and Rare Diseases","score":0.6596999764442444,"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"}},"topics":[{"id":"https://openalex.org/T11642","display_name":"Genomics and Rare Diseases","score":0.6596999764442444,"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"}},{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.20319999754428864,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.04129999876022339,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.8821737766265869},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6557873487472534},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5939184427261353},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4884013533592224},{"id":"https://openalex.org/keywords/exome","display_name":"Exome","score":0.44086557626724243},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.42711713910102844},{"id":"https://openalex.org/keywords/open-source","display_name":"Open source","score":0.4128299653530121},{"id":"https://openalex.org/keywords/exome-sequencing","display_name":"Exome sequencing","score":0.3937346339225769},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3785741925239563},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3243292570114136},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.3024255037307739},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3004739284515381},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1446020007133484},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.11668750643730164},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11117351055145264}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.8821737766265869},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6557873487472534},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5939184427261353},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4884013533592224},{"id":"https://openalex.org/C10590036","wikidata":"https://www.wikidata.org/wiki/Q417664","display_name":"Exome","level":5,"score":0.44086557626724243},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.42711713910102844},{"id":"https://openalex.org/C3018397939","wikidata":"https://www.wikidata.org/wiki/Q3644502","display_name":"Open source","level":3,"score":0.4128299653530121},{"id":"https://openalex.org/C16671776","wikidata":"https://www.wikidata.org/wiki/Q5420592","display_name":"Exome sequencing","level":4,"score":0.3937346339225769},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3785741925239563},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3243292570114136},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.3024255037307739},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3004739284515381},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1446020007133484},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.11668750643730164},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11117351055145264}],"mesh":[{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004252","descriptor_name":"DNA Mutational Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004252","descriptor_name":"DNA Mutational Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D004252","descriptor_name":"DNA Mutational Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","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":"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":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020125","descriptor_name":"Mutation, Missense","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020125","descriptor_name":"Mutation, Missense","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020125","descriptor_name":"Mutation, Missense","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btr357","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr357","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/15/2147/13846322/btr357.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21685053","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21685053","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:CiteSeerX.psu:10.1.1.806.7932","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.806.7932","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/95/55/btr357.PMC3137226.pdf","raw_type":"text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:27/15/2147","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/27/15/2147","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:3137226","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3137226","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btr357","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btr357","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/27/15/2147/13846322/btr357.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1301168740","display_name":null,"funder_award_id":"CA 135877","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W1494567425","https://openalex.org/W1899479364","https://openalex.org/W2048624832","https://openalex.org/W2072572998","https://openalex.org/W2101735289","https://openalex.org/W2101897262","https://openalex.org/W2102140136","https://openalex.org/W2107903949","https://openalex.org/W2110065044","https://openalex.org/W2120240539","https://openalex.org/W2122232025","https://openalex.org/W2130410032","https://openalex.org/W2143238378","https://openalex.org/W2160938004","https://openalex.org/W2171645979","https://openalex.org/W2911964244"],"related_works":["https://openalex.org/W2093932542","https://openalex.org/W4401741136","https://openalex.org/W2557718140","https://openalex.org/W4386470600","https://openalex.org/W4399490472","https://openalex.org/W4402567428","https://openalex.org/W2043256480","https://openalex.org/W2172231381","https://openalex.org/W1983406990","https://openalex.org/W2106924416"],"abstract_inverted_index":{"SUMMARY:":[0],"Thousands":[1],"of":[2,11,17,43,64,134],"cancer":[3],"exomes":[4],"are":[5],"currently":[6],"being":[7],"sequenced,":[8],"yielding":[9],"millions":[10],"non-synonymous":[12],"single":[13],"nucleotide":[14],"variants":[15],"(SNVs)":[16],"possible":[18],"relevance":[19],"to":[20,29,37],"disease":[21],"etiology.":[22],"Here,":[23],"we":[24],"provide":[25],"a":[26,41,65],"software":[27,120],"toolkit":[28],"prioritize":[30],"SNVs":[31],"based":[32],"on":[33,98],"their":[34],"predicted":[35],"contribution":[36],"tumorigenesis.":[38],"It":[39],"includes":[40],"database":[42,128],"precomputed,":[44],"predictive":[45],"features":[46],"covering":[47],"all":[48],"positions":[49],"in":[50,87],"the":[51],"annotated":[52],"human":[53],"exome":[54],"and":[55,77,89,102,121],"can":[56],"be":[57],"used":[58],"either":[59],"stand-alone":[60],"or":[61,93],"as":[62],"part":[63],"larger":[66],"variant":[67],"discovery":[68],"pipeline.":[69],"AVAILABILITY":[70],"AND":[71],"IMPLEMENTATION:":[72],"MySQL":[73,108,127],"database,":[74],"source":[75],"code":[76],"binaries":[78],"freely":[79],"available":[80,113],"for":[81,119,126],"academic/government":[82],"use":[83],"at":[84],"http://wiki.chasmsoftware.org,":[85],"Source":[86],"Python":[88,106],"C++.":[90],"Requires":[91],"32":[92],"64-bit":[94],"Linux":[95],"system":[96],"(tested":[97],"Fedora":[99],"Core":[100],"8,10,11":[101],"Ubuntu":[103],"10),":[104],"2.5*\u2264":[105],"<3.0*,":[107],"server":[109],">5.0,":[110],"60":[111],"GB":[112,125,133],"hard":[114],"disk":[115],"space":[116],"(50":[117],"MB":[118],"data":[122],"files,":[123],"40":[124],"dump":[129],"when":[130],"uncompressed),":[131],"2":[132],"RAM.":[135]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":12},{"year":2023,"cited_by_count":12},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":12},{"year":2020,"cited_by_count":21},{"year":2019,"cited_by_count":19},{"year":2018,"cited_by_count":8},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":8},{"year":2014,"cited_by_count":11},{"year":2013,"cited_by_count":11},{"year":2012,"cited_by_count":4}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}
