{"id":"https://openalex.org/W4402076683","doi":"https://doi.org/10.1093/bib/bbae425","title":"Synthetic lethal connectivity and graph transformer improve synthetic lethality prediction","display_name":"Synthetic lethal connectivity and graph transformer improve synthetic lethality prediction","publication_year":2024,"publication_date":"2024-07-25","ids":{"openalex":"https://openalex.org/W4402076683","doi":"https://doi.org/10.1093/bib/bbae425","pmid":"https://pubmed.ncbi.nlm.nih.gov/39210507"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae425","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae425","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1093/bib/bbae425","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5051215222","display_name":"Kunjie Fan","orcid":"https://orcid.org/0000-0002-0392-1177"},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kunjie Fan","raw_affiliation_strings":["Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001861415","display_name":"Birkan G\u00f6kba\u011f","orcid":"https://orcid.org/0000-0002-9238-1650"},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Birkan G\u00f6kba\u011f","raw_affiliation_strings":["Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States"],"raw_orcid":"https://orcid.org/0000-0002-9238-1650","affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016632776","display_name":"Shan Tang","orcid":"https://orcid.org/0000-0001-5662-8401"},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shan Tang","raw_affiliation_strings":["Department of Biomedical Informatics , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","The Ohio State University , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"The Ohio State University , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062894822","display_name":"Shangjia Li","orcid":null},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shangjia Li","raw_affiliation_strings":["Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018586912","display_name":"Yirui Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yirui Huang","raw_affiliation_strings":["Department of Biomedical Informatics , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","The Ohio State University , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"The Ohio State University , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100322864","display_name":"Lingling Wang","orcid":"https://orcid.org/0000-0003-0272-2974"},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lingling Wang","raw_affiliation_strings":["Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081051304","display_name":"Lijun Cheng","orcid":null},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lijun Cheng","raw_affiliation_strings":["Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100383612","display_name":"Lang Li","orcid":"https://orcid.org/0000-0002-0746-1809"},"institutions":[{"id":"https://openalex.org/I52357470","display_name":"The Ohio State University","ror":"https://ror.org/00rs6vg23","country_code":"US","type":"education","lineage":["https://openalex.org/I52357470"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lang Li","raw_affiliation_strings":["Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","Department of Biomedical Informatics , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","The Ohio State University , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"Department of Biomedical Informatics , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","institution_ids":[]},{"raw_affiliation_string":"The Ohio State University , College of Medicine, , 1800 Cannon Drive, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]},{"raw_affiliation_string":"The Ohio State University , College of Pharmacy, , 500 W. 12 ave, Columbus, OH 43210, United States","institution_ids":["https://openalex.org/I52357470"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I52357470"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.293,"has_fulltext":true,"cited_by_count":13,"citation_normalized_percentile":{"value":0.82721802,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"25","issue":"5","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9973999857902527,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11948","display_name":"Machine Learning in Materials Science","score":0.9973999857902527,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11273","display_name":"Advanced Graph Neural Networks","score":0.9954000115394592,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11689","display_name":"Adversarial Robustness in Machine Learning","score":0.984499990940094,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/lethality","display_name":"Lethality","score":0.8261384963989258},{"id":"https://openalex.org/keywords/synthetic-lethality","display_name":"Synthetic lethality","score":0.6801308989524841},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.530725359916687},{"id":"https://openalex.org/keywords/transformer","display_name":"Transformer","score":0.5120397210121155},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.208034485578537},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13346049189567566},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.1279955804347992},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09500506520271301},{"id":"https://openalex.org/keywords/electrical-engineering","display_name":"Electrical engineering","score":0.05650845170021057}],"concepts":[{"id":"https://openalex.org/C20379349","wikidata":"https://www.wikidata.org/wiki/Q1720706","display_name":"Lethality","level":2,"score":0.8261384963989258},{"id":"https://openalex.org/C2778502085","wikidata":"https://www.wikidata.org/wiki/Q7662767","display_name":"Synthetic lethality","level":4,"score":0.6801308989524841},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.530725359916687},{"id":"https://openalex.org/C66322947","wikidata":"https://www.wikidata.org/wiki/Q11658","display_name":"Transformer","level":3,"score":0.5120397210121155},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.208034485578537},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13346049189567566},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.1279955804347992},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09500506520271301},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.05650845170021057},{"id":"https://openalex.org/C165801399","wikidata":"https://www.wikidata.org/wiki/Q25428","display_name":"Voltage","level":2,"score":0.0},{"id":"https://openalex.org/C134935766","wikidata":"https://www.wikidata.org/wiki/Q210538","display_name":"DNA repair","level":3,"score":0.0}],"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":"D000072020","descriptor_name":"Synthetic Lethal Mutations","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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":"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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019169","descriptor_name":"Jurkat Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019169","descriptor_name":"Jurkat Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019169","descriptor_name":"Jurkat Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019169","descriptor_name":"Jurkat Cells","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},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020014","descriptor_name":"K562 Cells","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055786","descriptor_name":"Gene Knockout Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055786","descriptor_name":"Gene Knockout Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055786","descriptor_name":"Gene Knockout Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055786","descriptor_name":"Gene Knockout Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064113","descriptor_name":"CRISPR-Cas Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064113","descriptor_name":"CRISPR-Cas Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064113","descriptor_name":"CRISPR-Cas Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064113","descriptor_name":"CRISPR-Cas Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbae425","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae425","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39210507","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39210507","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11361842","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11361842","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11361842/pdf/bbae425.pdf","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":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae425","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae425","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":63,"referenced_works":["https://openalex.org/W1435110089","https://openalex.org/W1498436455","https://openalex.org/W1522301498","https://openalex.org/W1572664742","https://openalex.org/W1973260880","https://openalex.org/W1989006164","https://openalex.org/W2043600151","https://openalex.org/W2044511756","https://openalex.org/W2045953361","https://openalex.org/W2047178946","https://openalex.org/W2065257477","https://openalex.org/W2096766502","https://openalex.org/W2114727688","https://openalex.org/W2159906261","https://openalex.org/W2472255748","https://openalex.org/W2556519015","https://openalex.org/W2597646117","https://openalex.org/W2601016637","https://openalex.org/W2618439945","https://openalex.org/W2735061684","https://openalex.org/W2735132087","https://openalex.org/W2781417302","https://openalex.org/W2783339841","https://openalex.org/W2784007581","https://openalex.org/W2802052189","https://openalex.org/W2809699427","https://openalex.org/W2883377762","https://openalex.org/W2883529879","https://openalex.org/W2888593364","https://openalex.org/W2892164761","https://openalex.org/W2910432947","https://openalex.org/W2917858269","https://openalex.org/W2939312265","https://openalex.org/W2944727022","https://openalex.org/W2946331502","https://openalex.org/W2963277165","https://openalex.org/W2990747402","https://openalex.org/W2995178483","https://openalex.org/W3013279271","https://openalex.org/W3048825106","https://openalex.org/W3103967557","https://openalex.org/W3131175301","https://openalex.org/W3181518724","https://openalex.org/W3211402536","https://openalex.org/W4200542850","https://openalex.org/W4221166193","https://openalex.org/W4225820450","https://openalex.org/W4287446891","https://openalex.org/W4288419263","https://openalex.org/W4292386143","https://openalex.org/W4293280550","https://openalex.org/W4295312788","https://openalex.org/W4296774962","https://openalex.org/W4307425304","https://openalex.org/W4310482594","https://openalex.org/W4313890362","https://openalex.org/W4362720950","https://openalex.org/W4387966385","https://openalex.org/W6643295263","https://openalex.org/W6661392339","https://openalex.org/W6683579709","https://openalex.org/W6752626972","https://openalex.org/W6847555025"],"related_works":["https://openalex.org/W2116506288","https://openalex.org/W3093199425","https://openalex.org/W4391952194","https://openalex.org/W1508071893","https://openalex.org/W3097247875","https://openalex.org/W4280520494","https://openalex.org/W2161566038","https://openalex.org/W4400224178","https://openalex.org/W2950148520","https://openalex.org/W2518938096"],"abstract_inverted_index":{"Synthetic":[0],"lethality":[1],"(SL)":[2],"has":[3,105],"shown":[4],"great":[5],"promise":[6],"for":[7,39,88],"the":[8],"discovery":[9],"of":[10,50,56,145],"novel":[11,84],"targets":[12],"in":[13,45,120,149,153],"cancer.":[14],"CRISPR":[15],"double-knockout":[16],"(CDKO)":[17],"technologies":[18],"can":[19],"only":[20],"screen":[21,167],"several":[22],"hundred":[23],"genes":[24,40],"and":[25,41,77,100,111,126,140,174],"their":[26],"combinations,":[27],"but":[28],"not":[29],"genome-wide.":[30],"Therefore,":[31],"good":[32],"SL":[33,52,57,72,79,91,97,101,117,159,170],"prediction":[34,92,118,143],"models":[35],"are":[36],"highly":[37],"needed":[38],"gene":[42,164],"pairs":[43],"selection":[44],"CDKO":[46,151],"experiments.":[47],"However,":[48],"lack":[49],"scalable":[51,76],"properties":[53],"prevents":[54],"generalizability":[55],"interactions":[58,102],"to":[59],"out-of-sample":[60],"data,":[61],"thereby":[62],"hindering":[63],"modeling":[64],"efforts.":[65],"In":[66],"this":[67],"paper,":[68],"we":[69],"recognize":[70],"that":[71],"connectivity":[73,98],"is":[74,147],"a":[75,83,150,157],"generalizable":[78],"property.":[80],"We":[81],"develop":[82],"two-step":[85],"multilayer":[86],"encoder":[87],"individual":[89],"sample-specific":[90],"model":[93],"(MLEC-iSL),":[94],"which":[95],"predicts":[96],"first":[99],"subsequently.":[103],"MLEC-iSL":[104,114,146],"three":[106],"encoders,":[107],"namely,":[108],"gene,":[109],"graph,":[110],"transformer":[112],"encoders.":[113],"achieves":[115],"high":[116],"performance":[119,144],"K562":[121],"(AUPR,":[122,128],"0.73;":[123,129],"AUC,":[124,130],"0.72)":[125],"Jurkat":[127],"0.71)":[131],"cells,":[132,155],"while":[133],"no":[134],"existing":[135],"methods":[136],"exceed":[137],"0.62":[138],"AUPR":[139],"AUC.":[141],"The":[142,166],"validated":[148],"experiment":[152],"22Rv1":[154],"yielding":[156],"46.8%":[158],"rate":[160],"among":[161],"987":[162],"selected":[163],"pairs.":[165],"also":[168],"reveals":[169],"dependency":[171],"between":[172],"apoptosis":[173],"mitosis":[175],"cell":[176],"death":[177],"pathways.":[178]},"counts_by_year":[{"year":2026,"cited_by_count":5},{"year":2025,"cited_by_count":8}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}