{"id":"https://openalex.org/W4402810615","doi":"https://doi.org/10.1109/tvcg.2024.3456325","title":"SLInterpreter: An Exploratory and Iterative Human-AI Collaborative System for GNN-Based Synthetic Lethal Prediction","display_name":"SLInterpreter: An Exploratory and Iterative Human-AI Collaborative System for GNN-Based Synthetic Lethal Prediction","publication_year":2024,"publication_date":"2024-09-24","ids":{"openalex":"https://openalex.org/W4402810615","doi":"https://doi.org/10.1109/tvcg.2024.3456325","pmid":"https://pubmed.ncbi.nlm.nih.gov/39316494"},"language":"en","primary_location":{"id":"doi:10.1109/tvcg.2024.3456325","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tvcg.2024.3456325","pdf_url":null,"source":{"id":"https://openalex.org/S84775595","display_name":"IEEE Transactions on Visualization and Computer Graphics","issn_l":"1077-2626","issn":["1077-2626","1941-0506","2160-9306"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Visualization and Computer Graphics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5093932113","display_name":"Haoran Jiang","orcid":"https://orcid.org/0009-0009-5717-4208"},"institutions":[{"id":"https://openalex.org/I30809798","display_name":"ShanghaiTech University","ror":"https://ror.org/030bhh786","country_code":"CN","type":"education","lineage":["https://openalex.org/I30809798"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Haoran Jiang","raw_affiliation_strings":["School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China"],"affiliations":[{"raw_affiliation_string":"School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","institution_ids":["https://openalex.org/I30809798"]},{"raw_affiliation_string":"School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China","institution_ids":["https://openalex.org/I30809798"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005736802","display_name":"Shaohan Shi","orcid":"https://orcid.org/0009-0004-3384-8304"},"institutions":[{"id":"https://openalex.org/I30809798","display_name":"ShanghaiTech University","ror":"https://ror.org/030bhh786","country_code":"CN","type":"education","lineage":["https://openalex.org/I30809798"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shaohan Shi","raw_affiliation_strings":["School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China"],"affiliations":[{"raw_affiliation_string":"School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","institution_ids":["https://openalex.org/I30809798"]},{"raw_affiliation_string":"School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China","institution_ids":["https://openalex.org/I30809798"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073903190","display_name":"S. H. Zhang","orcid":"https://orcid.org/0009-0008-1933-1869"},"institutions":[{"id":"https://openalex.org/I30809798","display_name":"ShanghaiTech University","ror":"https://ror.org/030bhh786","country_code":"CN","type":"education","lineage":["https://openalex.org/I30809798"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Shuhao Zhang","raw_affiliation_strings":["School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China"],"affiliations":[{"raw_affiliation_string":"School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","institution_ids":["https://openalex.org/I30809798"]},{"raw_affiliation_string":"School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China","institution_ids":["https://openalex.org/I30809798"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5014529529","display_name":"Jie Zheng","orcid":"https://orcid.org/0000-0001-6774-9786"},"institutions":[{"id":"https://openalex.org/I30809798","display_name":"ShanghaiTech University","ror":"https://ror.org/030bhh786","country_code":"CN","type":"education","lineage":["https://openalex.org/I30809798"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jie Zheng","raw_affiliation_strings":["School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China"],"affiliations":[{"raw_affiliation_string":"School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","institution_ids":["https://openalex.org/I30809798"]},{"raw_affiliation_string":"School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China","institution_ids":["https://openalex.org/I30809798"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100447162","display_name":"Quan Li","orcid":"https://orcid.org/0000-0003-2249-0728"},"institutions":[{"id":"https://openalex.org/I30809798","display_name":"ShanghaiTech University","ror":"https://ror.org/030bhh786","country_code":"CN","type":"education","lineage":["https://openalex.org/I30809798"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Quan Li","raw_affiliation_strings":["School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China"],"affiliations":[{"raw_affiliation_string":"School of Information Science and Technology, ShanghaiTech University and Shanghai Engineering Research Center of Intelligent Vision and Imaging, China","institution_ids":["https://openalex.org/I30809798"]},{"raw_affiliation_string":"School of Information Science and Technology, and Shanghai Engineering Research Center of Intelligent Vision and Imaging, ShanghaiTech University, China","institution_ids":["https://openalex.org/I30809798"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5093932113"],"corresponding_institution_ids":["https://openalex.org/I30809798"],"apc_list":null,"apc_paid":null,"fwci":0.6879,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.75786352,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"31","issue":"1","first_page":"919","last_page":"929"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11689","display_name":"Adversarial Robustness in Machine Learning","score":0.996999979019165,"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"}},"topics":[{"id":"https://openalex.org/T11689","display_name":"Adversarial Robustness in Machine Learning","score":0.996999979019165,"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/T12296","display_name":"Autopsy Techniques and Outcomes","score":0.9193000197410583,"subfield":{"id":"https://openalex.org/subfields/2741","display_name":"Radiology, Nuclear Medicine and Imaging"},"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/T10883","display_name":"Ethics and Social Impacts of AI","score":0.9125999808311462,"subfield":{"id":"https://openalex.org/subfields/3311","display_name":"Safety Research"},"field":{"id":"https://openalex.org/fields/33","display_name":"Social Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7569916248321533},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5242624282836914},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.40394705533981323},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.32909584045410156}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7569916248321533},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5242624282836914},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.40394705533981323},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.32909584045410156}],"mesh":[{"descriptor_ui":"D000072020","descriptor_name":"Synthetic Lethal Mutations","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000072020","descriptor_name":"Synthetic Lethal Mutations","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000072020","descriptor_name":"Synthetic Lethal Mutations","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000072020","descriptor_name":"Synthetic Lethal Mutations","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1109/tvcg.2024.3456325","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tvcg.2024.3456325","pdf_url":null,"source":{"id":"https://openalex.org/S84775595","display_name":"IEEE Transactions on Visualization and Computer Graphics","issn_l":"1077-2626","issn":["1077-2626","1941-0506","2160-9306"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Visualization and Computer Graphics","raw_type":"journal-article"},{"id":"pmid:39316494","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39316494","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":"IEEE transactions on visualization and computer graphics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":68,"referenced_works":["https://openalex.org/W1988581590","https://openalex.org/W2008229568","https://openalex.org/W2013469333","https://openalex.org/W2014097228","https://openalex.org/W2017289276","https://openalex.org/W2045953361","https://openalex.org/W2089468765","https://openalex.org/W2108068107","https://openalex.org/W2109021810","https://openalex.org/W2141012957","https://openalex.org/W2160413577","https://openalex.org/W2165492471","https://openalex.org/W2519851048","https://openalex.org/W2704159227","https://openalex.org/W2792919287","https://openalex.org/W2794079986","https://openalex.org/W2806082845","https://openalex.org/W2901895173","https://openalex.org/W2911489562","https://openalex.org/W2911710737","https://openalex.org/W2943183669","https://openalex.org/W2963318411","https://openalex.org/W2982352208","https://openalex.org/W2993139375","https://openalex.org/W2999615587","https://openalex.org/W2999637955","https://openalex.org/W3013279271","https://openalex.org/W3024669012","https://openalex.org/W3032816739","https://openalex.org/W3082138527","https://openalex.org/W3093660685","https://openalex.org/W3152543681","https://openalex.org/W3176894340","https://openalex.org/W3181518724","https://openalex.org/W3192495122","https://openalex.org/W3196824436","https://openalex.org/W3201342094","https://openalex.org/W3202452289","https://openalex.org/W4200040854","https://openalex.org/W4210513286","https://openalex.org/W4220901818","https://openalex.org/W4224940987","https://openalex.org/W4224995305","https://openalex.org/W4225117847","https://openalex.org/W4234779140","https://openalex.org/W4256272326","https://openalex.org/W4288086168","https://openalex.org/W4296775963","https://openalex.org/W4297252763","https://openalex.org/W4304757966","https://openalex.org/W4309561539","https://openalex.org/W4316494586","https://openalex.org/W4318465115","https://openalex.org/W4366551388","https://openalex.org/W4382630911","https://openalex.org/W4384158841","https://openalex.org/W4384643953","https://openalex.org/W4389174435","https://openalex.org/W4390005328","https://openalex.org/W4390051486","https://openalex.org/W4390971263","https://openalex.org/W6748816842","https://openalex.org/W6763140224","https://openalex.org/W6767288045","https://openalex.org/W6786048916","https://openalex.org/W6790580958","https://openalex.org/W6803640039","https://openalex.org/W6810128082"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W2068608913","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W3124914020","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Synthetic":[0],"Lethal":[1],"(SL)":[2],"relationships,":[3,124],"though":[4],"rare":[5],"among":[6,32],"the":[7,50,90,186],"vast":[8],"array":[9],"of":[10,53],"gene":[11],"combinations,":[12],"hold":[13],"substantial":[14],"promise":[15],"for":[16,35],"targeted":[17],"cancer":[18],"therapy.":[19],"Despite":[20],"advancements":[21],"in":[22,110],"AI":[23],"model":[24,143],"accuracy,":[25],"there":[26],"is":[27],"still":[28],"a":[29,190],"significant":[30],"need":[31],"domain":[33,86,170],"experts":[34,109],"interpretive":[36,83,116,165],"paths":[37,84,117,166],"and":[38,85,104,112,115,128,145,151,172,193],"mechanism":[39,146],"explorations":[40],"that":[41,162],"align":[42,168],"better":[43],"with":[44,66,96,169],"domain-specific":[45],"knowledge,":[46],"particularly":[47],"due":[48],"to":[49,88,153,176],"high":[51],"costs":[52],"experimentation.":[54],"To":[55],"address":[56],"this":[57,159],"gap,":[58],"we":[59],"propose":[60],"an":[61],"iterative":[62,181],"Human-AI":[63,182],"collaborative":[64],"framework":[65,160],"two":[67],"key":[68],"components:":[69],"1)":[70],"Human-Engaged":[71],"Knowledge":[72],"Graph":[73,134],"Refinement":[74],"based":[75],"on":[76],"Metapath":[77],"Strategies,":[78],"which":[79,107],"leverages":[80],"insights":[81],"from":[82],"expertise":[87],"refine":[89],"knowledge":[91,171],"graph":[92],"through":[93,180,189],"metapath":[94],"strategies":[95],"appropriate":[97],"granularity.":[98],"2)":[99],"Cross-Granularity":[100],"SL":[101,123],"Interpretation":[102],"Enhancement":[103],"Mechanism":[105],"Analysis,":[106],"aids":[108],"organizing":[111],"comparing":[113],"predictions":[114,144],"across":[118],"different":[119],"granularities,":[120],"uncovering":[121],"new":[122],"enhancing":[125,148],"result":[126],"interpretation,":[127],"elucidating":[129],"potential":[130],"mechanisms":[131],"inferred":[132],"by":[133,157],"Neural":[135],"Network":[136],"(GNN)":[137],"models.":[138],"These":[139],"components":[140],"cyclically":[141],"optimize":[142],"explorations,":[147],"expert":[149,194],"involvement":[150],"intervention":[152],"build":[154],"trust.":[155],"Facilitated":[156],"SLInterpreter,":[158],"ensures":[161],"newly":[163],"generated":[164],"increasingly":[167],"adhere":[173],"more":[174],"closely":[175],"real-world":[177],"biological":[178],"principles":[179],"collaboration.":[183],"We":[184],"evaluate":[185],"framework's":[187],"efficacy":[188],"case":[191],"study":[192],"interviews.":[195]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
