{"id":"https://openalex.org/W2883529879","doi":"https://doi.org/10.1093/bioinformatics/bty673","title":"DiscoverSL: an R package for multi-omic data driven prediction of synthetic lethality in cancers","display_name":"DiscoverSL: an R package for multi-omic data driven prediction of synthetic lethality in cancers","publication_year":2018,"publication_date":"2018-07-26","ids":{"openalex":"https://openalex.org/W2883529879","doi":"https://doi.org/10.1093/bioinformatics/bty673","mag":"2883529879","pmid":"https://pubmed.ncbi.nlm.nih.gov/30059974"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty673","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty673","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/4/701/27838377/bty673.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","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/35/4/701/27838377/bty673.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5074922753","display_name":"Shaoli Das","orcid":"https://orcid.org/0000-0002-3428-1862"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210140884","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"id":"https://openalex.org/I4210149717","display_name":"Center for Cancer Research","ror":"https://ror.org/05bjen692","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shaoli Das","raw_affiliation_strings":["Radiation Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Radiation Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054529618","display_name":"Xiang Deng","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210140884","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"id":"https://openalex.org/I4210149717","display_name":"Center for Cancer Research","ror":"https://ror.org/05bjen692","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiang Deng","raw_affiliation_strings":["Radiation Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Radiation Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036663495","display_name":"Kevin Camphausen","orcid":"https://orcid.org/0000-0002-0450-4877"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210140884","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"id":"https://openalex.org/I4210149717","display_name":"Center for Cancer Research","ror":"https://ror.org/05bjen692","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kevin Camphausen","raw_affiliation_strings":["Radiation Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Radiation Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083432144","display_name":"Uma Shankavaram","orcid":"https://orcid.org/0000-0001-9659-0284"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210140884","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884"]},{"id":"https://openalex.org/I4210149717","display_name":"Center for Cancer Research","ror":"https://ror.org/05bjen692","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Uma Shankavaram","raw_affiliation_strings":["Radiation Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Radiation Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA","institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5083432144"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210140884","https://openalex.org/I4210149717"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":{"value":3989,"currency":"USD","value_usd":3989},"fwci":1.3132,"has_fulltext":true,"cited_by_count":55,"citation_normalized_percentile":{"value":0.77308846,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"35","issue":"4","first_page":"701","last_page":"702"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.42899999022483826,"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":0.42899999022483826,"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":0.17000000178813934,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.1145000010728836,"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/synthetic-lethality","display_name":"Synthetic lethality","score":0.9140977263450623},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5317028164863586},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.520116925239563},{"id":"https://openalex.org/keywords/cancer-cell-lines","display_name":"Cancer cell lines","score":0.416046679019928},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3904334008693695},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3528404235839844},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3236287236213684},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.31692272424697876},{"id":"https://openalex.org/keywords/cancer","display_name":"Cancer","score":0.2774379849433899},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20606839656829834},{"id":"https://openalex.org/keywords/cancer-cell","display_name":"Cancer cell","score":0.19080588221549988},{"id":"https://openalex.org/keywords/dna-repair","display_name":"DNA repair","score":0.15185219049453735}],"concepts":[{"id":"https://openalex.org/C2778502085","wikidata":"https://www.wikidata.org/wiki/Q7662767","display_name":"Synthetic lethality","level":4,"score":0.9140977263450623},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5317028164863586},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.520116925239563},{"id":"https://openalex.org/C2994372470","wikidata":"https://www.wikidata.org/wiki/Q4118072","display_name":"Cancer cell lines","level":4,"score":0.416046679019928},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3904334008693695},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3528404235839844},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3236287236213684},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.31692272424697876},{"id":"https://openalex.org/C121608353","wikidata":"https://www.wikidata.org/wiki/Q12078","display_name":"Cancer","level":2,"score":0.2774379849433899},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20606839656829834},{"id":"https://openalex.org/C96232424","wikidata":"https://www.wikidata.org/wiki/Q4118072","display_name":"Cancer cell","level":3,"score":0.19080588221549988},{"id":"https://openalex.org/C134935766","wikidata":"https://www.wikidata.org/wiki/Q210538","display_name":"DNA repair","level":3,"score":0.15185219049453735}],"mesh":[{"descriptor_ui":"D000072020","descriptor_name":"Synthetic Lethal Mutations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000072020","descriptor_name":"Synthetic Lethal Mutations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000072020","descriptor_name":"Synthetic Lethal Mutations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005804","descriptor_name":"Genes, Lethal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005804","descriptor_name":"Genes, Lethal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005804","descriptor_name":"Genes, Lethal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005813","descriptor_name":"Genes, Synthetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005813","descriptor_name":"Genes, Synthetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005813","descriptor_name":"Genes, Synthetic","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":"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":"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}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bty673","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty673","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/4/701/27838377/bty673.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30059974","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30059974","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":"Journal Article"},{"id":"pmh:oai:europepmc.org:5963072","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6378931","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty673","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty673","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/4/701/27838377/bty673.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2883529879.pdf","grobid_xml":"https://content.openalex.org/works/W2883529879.grobid-xml"},"referenced_works_count":11,"referenced_works":["https://openalex.org/W1895317372","https://openalex.org/W2002962154","https://openalex.org/W2045953361","https://openalex.org/W2052287702","https://openalex.org/W2108068107","https://openalex.org/W2130410032","https://openalex.org/W2160584334","https://openalex.org/W2618439945","https://openalex.org/W2747523030","https://openalex.org/W3098487500","https://openalex.org/W6639577577"],"related_works":["https://openalex.org/W2513589746","https://openalex.org/W2153919606","https://openalex.org/W2003194288","https://openalex.org/W2213189664","https://openalex.org/W2074002899","https://openalex.org/W2062254828","https://openalex.org/W4237480606","https://openalex.org/W2936968863","https://openalex.org/W1971792277","https://openalex.org/W3026240506"],"abstract_inverted_index":{"SUMMARY:":[0],"Synthetic":[1],"lethality":[2,38],"is":[3,12,25,78,110,141],"a":[4,15,63],"state":[5],"when":[6],"simultaneous":[7],"loss":[8,20],"of":[9,21,70,127],"two":[10],"genes":[11,24,77],"lethal":[13,76,108],"to":[14,33,61,118],"cancer":[16,43,89],"cell,":[17],"while":[18],"the":[19,22,73,106,125],"individual":[23],"not.":[26],"We":[27],"developed":[28],"an":[29],"R":[30],"package":[31,134],"DiscoverSL":[32,133],"predict":[34],"and":[35,49,84,103,138],"visualize":[36],"synthetic":[37,75,107,128],"in":[39,80,96,100,105],"cancers":[40],"using":[41,82,112],"multi-omic":[42],"data.":[44],"Mutation,":[45],"copy":[46],"number":[47],"alteration":[48],"gene":[50,102,109],"expression":[51],"data":[52,87,155],"from":[53,88,145],"The":[54,68,93,115],"Cancer":[55],"Genome":[56],"Atlas":[57],"project":[58],"were":[59],"combined":[60],"develop":[62],"multi-parametric":[64],"Random":[65],"Forest":[66],"classifier.":[67],"effects":[69],"selectively":[71],"targeting":[72],"predicted":[74],"tested":[79],"silico":[81],"shRNA":[83],"drug":[85],"screening":[86],"cell":[90],"line":[91],"databases.":[92],"clinical":[94],"outcome":[95],"patients":[97],"with":[98,135],"mutation":[99],"primary":[101],"over/under-expression":[104],"evaluated":[111],"Kaplan-Meier":[113],"analysis.":[114],"method":[116],"helps":[117],"identify":[119],"new":[120],"therapeutic":[121],"approaches":[122],"by":[123],"exploiting":[124],"concept":[126],"lethality.":[129],"AVAILABILITY":[130],"AND":[131],"IMPLEMENTATION:":[132],"user":[136],"manual":[137],"sample":[139],"workflow":[140],"available":[142,157],"for":[143],"download":[144],"github":[146],"url:":[147],"https://github.com/shaoli86/DiscoverSL/releases/tag/V1.0":[148],"under":[149],"GNU":[150],"GPL-3.":[151],"SUPPLEMENTARY":[152],"INFORMATION:":[153],"Supplementary":[154],"are":[156],"at":[158],"Bioinformatics":[159],"online.":[160]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":9},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":2}],"updated_date":"2026-08-29T07:29:34.045763","created_date":"2025-10-10T00:00:00"}
