{"id":"https://openalex.org/W7160644582","doi":"https://doi.org/10.48550/arxiv.2605.05985","title":"BioResearcher: Scenario-Guided Multi-Agent for Translational Medicine","display_name":"BioResearcher: Scenario-Guided Multi-Agent for Translational Medicine","publication_year":2026,"publication_date":"2026-05-07","ids":{"openalex":"https://openalex.org/W7160644582","doi":"https://doi.org/10.48550/arxiv.2605.05985"},"language":null,"primary_location":{"id":"doi:10.48550/arxiv.2605.05985","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2605.05985","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":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Preprint"},"type":"preprint","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.48550/arxiv.2605.05985","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5135672326","display_name":"Remigiusz Kinas","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kinas, Remigiusz","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5135648648","display_name":"Joanna Krawczyk","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Krawczyk, Joanna","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046898079","display_name":"Rafa\u0142 Powalski","orcid":"https://orcid.org/0000-0001-8509-5683"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Powalski, Rafa\u0142","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5135720352","display_name":"Przemys\u0142aw Pietrzak","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Pietrzak, Przemys\u0142aw","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5135655105","display_name":"Agnieszka Kowalewska","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kowalewska, Agnieszka","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006637763","display_name":"Krzysztof Kolmus","orcid":"https://orcid.org/0000-0002-9155-6383"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kolmus, Krzysztof","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057763067","display_name":"Maciej Sypetkowski","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Sypetkowski, Maciej","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5135684089","display_name":"\u0141ukasz Smoli\u0144ski","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Smoli\u0144ski, \u0141ukasz","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5083420446","display_name":"Tomasz Jetka","orcid":"https://orcid.org/0000-0001-7449-9818"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jetka, Tomasz","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":[],"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/T11986","display_name":"Scientific Computing and Data Management","score":0.30880001187324524,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.30880001187324524,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.24210000038146973,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.10300000011920929,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.7095000147819519},{"id":"https://openalex.org/keywords/translational-medicine","display_name":"Translational medicine","score":0.6791999936103821},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.6510999798774719},{"id":"https://openalex.org/keywords/translational-research","display_name":"Translational research","score":0.38179999589920044},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.373199999332428},{"id":"https://openalex.org/keywords/clinical-practice","display_name":"Clinical Practice","score":0.34610000252723694}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.7095000147819519},{"id":"https://openalex.org/C162264550","wikidata":"https://www.wikidata.org/wiki/Q17112037","display_name":"Translational medicine","level":2,"score":0.6791999936103821},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6510999798774719},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6385999917984009},{"id":"https://openalex.org/C128544194","wikidata":"https://www.wikidata.org/wiki/Q474859","display_name":"Translational research","level":2,"score":0.38179999589920044},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.373199999332428},{"id":"https://openalex.org/C2779974597","wikidata":"https://www.wikidata.org/wiki/Q28448986","display_name":"Clinical Practice","level":2,"score":0.34610000252723694},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3278999924659729},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.31290000677108765},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.2955999970436096},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2919999957084656},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.2711000144481659},{"id":"https://openalex.org/C3018397939","wikidata":"https://www.wikidata.org/wiki/Q3644502","display_name":"Open source","level":3,"score":0.2705000042915344},{"id":"https://openalex.org/C163763905","wikidata":"https://www.wikidata.org/wiki/Q17075943","display_name":"Precision medicine","level":2,"score":0.250900000333786},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.25049999356269836},{"id":"https://openalex.org/C19648533","wikidata":"https://www.wikidata.org/wiki/Q691640","display_name":"Evidence-based medicine","level":3,"score":0.2500999867916107}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.48550/arxiv.2605.05985","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2605.05985","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":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Preprint"}],"best_oa_location":{"id":"doi:10.48550/arxiv.2605.05985","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2605.05985","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":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Preprint"},"sustainable_development_goals":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.5169033408164978}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"Translational":[0],"medicine":[1],"turns":[2],"underspecified":[3],"development":[4],"goals":[5],"into":[6],"evidence":[7],"synthesis":[8],"that":[9,57,71],"must":[10],"combine":[11],"literature,":[12],"trials,":[13],"patents,":[14],"and":[15,23,29,49,85,98,115,141,151,168,184],"quantitative":[16],"multi-omics":[17],"analysis":[18],"while":[19],"preserving":[20],"identifiers,":[21],"uncertainty,":[22],"retrievable":[24],"provenance.":[25],"General-purpose":[26],"foundation":[27],"models":[28],"off-the-shelf":[30],"tool-augmented":[31],"or":[32,46],"multi-agent":[33,69],"systems":[34],"are":[35],"not":[36],"built":[37],"for":[38,95],"this:":[39],"they":[40],"tend":[41],"to":[42,74,79],"produce":[43],"single-shot":[44],"answers":[45],"run":[47],"open-endedly,":[48],"fall":[50],"short":[51],"on":[52,123,139,147,153],"the":[53,142,160],"auditable,":[54],"scenario-specific":[55],"workflows":[56],"heterogeneous":[58],"biomedical":[59,113,135],"sources":[60],"demand.":[61],"This":[62],"paper":[63],"introduces":[64],"Ingenix":[65],"BioResearcher,":[66],"a":[67,154],"scenario-guided":[68],"system":[70],"maps":[72],"queries":[73],"versioned":[75],"research":[76],"playbooks,":[77],"delegates":[78],"specialized":[80],"subagents":[81],"over":[82],"30+":[83],"tools":[84],"machine-learning":[86],"endpoints,":[87],"mixes":[88],"structured":[89],"database":[90],"access":[91],"with":[92,159],"sandboxed":[93],"code":[94],"genome-scale":[96],"analyses,":[97],"applies":[99],"claim-level":[100],"multi-model":[101],"reconciliation":[102],"before":[103],"editorial":[104],"assembly.":[105],"We":[106],"evaluate":[107],"BioResearcher":[108],"across":[109,181],"unit-level":[110],"capabilities,":[111],"open-ended":[112],"reasoning,":[114],"end-to-end":[116,157,185],"clinical":[117,156,186],"discovery.":[118],"It":[119],"leads":[120,152],"evaluated":[121],"baselines":[122],"109":[124],"single-step":[125],"tests":[126],"(83.49%":[127],"pass":[128],"rate;":[129],"0.892":[130],"average":[131],"score),":[132],"achieves":[133],"strong":[134],"benchmark":[136,158],"performance":[137,180],"(89.33%":[138],"BixBench-Verified-50":[140],"top":[143],"0.758":[144],"mean":[145],"score":[146],"BaisBench":[148],"Scientific":[149],"Discovery),":[150],"30-query":[155],"highest":[161],"positive":[162],"hit":[163],"rate":[164,171],"(74.7%":[165],"$\\pm$":[166,173],"3.3%)":[167],"negative":[169],"clear":[170],"(96.8%":[172],"0.2%).":[174],"These":[175],"results":[176],"show":[177],"broad,":[178],"competitive":[179],"unit-level,":[182],"open-ended,":[183],"evaluations.":[187]},"counts_by_year":[],"updated_date":"2026-07-01T06:00:48.157686","created_date":"2026-05-09T00:00:00"}
