{"id":"https://openalex.org/W7131418255","doi":"https://doi.org/10.48550/arxiv.2602.19183","title":"SIDEKICK: A Semantically Integrated Resource for Drug Effects, Indications, and Contraindications","display_name":"SIDEKICK: A Semantically Integrated Resource for Drug Effects, Indications, and Contraindications","publication_year":2025,"publication_date":"2025-12-06","ids":{"openalex":"https://openalex.org/W7131418255","doi":"https://doi.org/10.48550/arxiv.2602.19183"},"language":null,"primary_location":{"id":"doi:10.48550/arxiv.2602.19183","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2602.19183","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},"type":"preprint","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.48550/arxiv.2602.19183","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5125573820","display_name":"Mohammad Ashhad","orcid":null},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Ashhad, Mohammad","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126792023","display_name":"Olga Mashkova","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Mashkova, Olga","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5126696822","display_name":"Ricardo Henao","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Henao, Ricardo","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5110613666","display_name":"Robert Hoehndorf","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Hoehndorf, Robert","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5125573820"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11943","display_name":"Pharmacovigilance and Adverse Drug Reactions","score":0.8597000241279602,"subfield":{"id":"https://openalex.org/subfields/3005","display_name":"Toxicology"},"field":{"id":"https://openalex.org/fields/30","display_name":"Pharmacology, Toxicology and Pharmaceutics"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11943","display_name":"Pharmacovigilance and Adverse Drug Reactions","score":0.8597000241279602,"subfield":{"id":"https://openalex.org/subfields/3005","display_name":"Toxicology"},"field":{"id":"https://openalex.org/fields/30","display_name":"Pharmacology, Toxicology and Pharmaceutics"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.09030000120401382,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.011099999770522118,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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/ontology","display_name":"Ontology","score":0.7437000274658203},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.5759999752044678},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.5593000054359436},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5049999952316284},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.47859999537467957},{"id":"https://openalex.org/keywords/pharmacovigilance","display_name":"Pharmacovigilance","score":0.46369999647140503},{"id":"https://openalex.org/keywords/knowledge-base","display_name":"Knowledge base","score":0.42570000886917114},{"id":"https://openalex.org/keywords/knowledge-representation-and-reasoning","display_name":"Knowledge representation and reasoning","score":0.4138999879360199},{"id":"https://openalex.org/keywords/semantic-integration","display_name":"Semantic integration","score":0.38960000872612},{"id":"https://openalex.org/keywords/linked-data","display_name":"Linked data","score":0.3790999948978424}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7774999737739563},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.7437000274658203},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.5759999752044678},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.5593000054359436},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5049999952316284},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.47859999537467957},{"id":"https://openalex.org/C57658597","wikidata":"https://www.wikidata.org/wiki/Q1550789","display_name":"Pharmacovigilance","level":3,"score":0.46369999647140503},{"id":"https://openalex.org/C4554734","wikidata":"https://www.wikidata.org/wiki/Q593744","display_name":"Knowledge base","level":2,"score":0.42570000886917114},{"id":"https://openalex.org/C161301231","wikidata":"https://www.wikidata.org/wiki/Q3478658","display_name":"Knowledge representation and reasoning","level":2,"score":0.4138999879360199},{"id":"https://openalex.org/C110903229","wikidata":"https://www.wikidata.org/wiki/Q7449064","display_name":"Semantic integration","level":4,"score":0.38960000872612},{"id":"https://openalex.org/C69075417","wikidata":"https://www.wikidata.org/wiki/Q515701","display_name":"Linked data","level":3,"score":0.3790999948978424},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3741999864578247},{"id":"https://openalex.org/C192800085","wikidata":"https://www.wikidata.org/wiki/Q5258530","display_name":"Semantic interoperability","level":3,"score":0.3734000027179718},{"id":"https://openalex.org/C199475168","wikidata":"https://www.wikidata.org/wiki/Q1539689","display_name":"MedDRA","level":4,"score":0.3564000129699707},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.34940001368522644},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.34769999980926514},{"id":"https://openalex.org/C101230327","wikidata":"https://www.wikidata.org/wiki/Q826165","display_name":"Web Ontology Language","level":3,"score":0.33709999918937683},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3212999999523163},{"id":"https://openalex.org/C65603577","wikidata":"https://www.wikidata.org/wiki/Q3427877","display_name":"Web resource","level":2,"score":0.31709998846054077},{"id":"https://openalex.org/C22550185","wikidata":"https://www.wikidata.org/wiki/Q7095047","display_name":"Ontology-based data integration","level":3,"score":0.3140000104904175},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.31189998984336853},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.3046000003814697},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.3034999966621399},{"id":"https://openalex.org/C63527458","wikidata":"https://www.wikidata.org/wiki/Q5133829","display_name":"Clinical decision support system","level":3,"score":0.30309998989105225},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.30070000886917114},{"id":"https://openalex.org/C50382505","wikidata":"https://www.wikidata.org/wiki/Q2553356","display_name":"OWL-S","level":4,"score":0.3003999888896942},{"id":"https://openalex.org/C90312973","wikidata":"https://www.wikidata.org/wiki/Q7449052","display_name":"Semantic data model","level":2,"score":0.2994000017642975},{"id":"https://openalex.org/C130318100","wikidata":"https://www.wikidata.org/wiki/Q2268914","display_name":"Semantic similarity","level":2,"score":0.2822999954223633},{"id":"https://openalex.org/C78726541","wikidata":"https://www.wikidata.org/wiki/Q3882785","display_name":"Upper ontology","level":3,"score":0.2802000045776367},{"id":"https://openalex.org/C102993220","wikidata":"https://www.wikidata.org/wiki/Q387196","display_name":"Description logic","level":2,"score":0.27799999713897705},{"id":"https://openalex.org/C6881194","wikidata":"https://www.wikidata.org/wiki/Q7449091","display_name":"Semantic technology","level":4,"score":0.2743000090122223},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.2741999924182892},{"id":"https://openalex.org/C115925183","wikidata":"https://www.wikidata.org/wiki/Q1412694","display_name":"Knowledge-based systems","level":2,"score":0.26989999413490295},{"id":"https://openalex.org/C56739046","wikidata":"https://www.wikidata.org/wiki/Q192060","display_name":"Knowledge management","level":1,"score":0.2581999897956848},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.25619998574256897},{"id":"https://openalex.org/C90673727","wikidata":"https://www.wikidata.org/wiki/Q901718","display_name":"Product (mathematics)","level":2,"score":0.2547000050544739},{"id":"https://openalex.org/C107327155","wikidata":"https://www.wikidata.org/wiki/Q330268","display_name":"Decision support system","level":2,"score":0.2526000142097473}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.48550/arxiv.2602.19183","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2602.19183","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"doi:10.48550/arxiv.2602.19183","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2602.19183","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"Pharmacovigilance":[0],"and":[1,31,38,56,66,77,92,105,114,140,161],"clinical":[2],"decision":[3],"support":[4],"systems":[5],"utilize":[6],"structured":[7],"drug":[8,53,90,123,166],"safety":[9,159],"data":[10],"to":[11,95,119,151],"guide":[12],"medical":[13],"practice.":[14],"However,":[15],"existing":[16],"datasets":[17],"frequently":[18],"depend":[19],"on":[20,71],"terminologies":[21],"such":[22],"as":[23,133,147],"MedDRA,":[24],"which":[25],"limits":[26],"their":[27,32],"semantic":[28],"reasoning":[29],"capabilities":[30],"interoperability":[33],"with":[34],"Semantic":[35],"Web":[36],"ontologies":[37],"knowledge":[39,49],"graphs.":[40],"To":[41],"address":[42],"this":[43],"gap,":[44],"we":[45],"developed":[46,65],"SIDEKICK,":[47],"a":[48,68,134],"graph":[50,139],"that":[51],"standardizes":[52],"indications,":[54],"contraindications,":[55],"adverse":[57],"reactions":[58],"from":[59],"FDA":[60],"Structured":[61],"Product":[62],"Labels.":[63],"We":[64,86,129],"used":[67],"workflow":[69],"based":[70],"Large":[72],"Language":[73],"Model":[74],"(LLM)":[75],"extraction":[76],"Graph-Retrieval":[78],"Augmented":[79],"Generation":[80],"(Graph":[81],"RAG)":[82],"for":[83,165],"ontology":[84,150],"mapping.":[85],"processed":[87],"over":[88],"50,000":[89],"labels":[91],"mapped":[93],"terms":[94],"the":[96,101,112,120,131,142],"Human":[97],"Phenotype":[98],"Ontology":[99,145],"(HPO),":[100],"MONDO":[102],"Disease":[103],"Ontology,":[104],"RxNorm.":[106],"Our":[107],"semantically":[108],"integrated":[109],"resource":[110],"outperforms":[111],"SIDER":[113],"ONSIDES":[115],"databases":[116],"when":[117],"applied":[118],"task":[121],"of":[122],"repurposing":[124],"by":[125],"side":[126],"effect":[127],"similarity.":[128],"serialized":[130],"dataset":[132],"Resource":[135],"Description":[136],"Framework":[137],"(RDF)":[138],"employed":[141],"Semanticscience":[143],"Integrated":[144],"(SIO)":[146],"upper":[148],"level":[149],"further":[152],"improve":[153],"interoperability.":[154],"Consequently,":[155],"SIDEKICK":[156],"enables":[157],"automated":[158],"surveillance":[160],"phenotype-based":[162],"similarity":[163],"analysis":[164],"repurposing.":[167]},"counts_by_year":[],"updated_date":"2026-02-26T06:34:08.959763","created_date":"2026-02-26T00:00:00"}