{"id":"https://openalex.org/W7162802301","doi":"https://doi.org/10.48550/arxiv.2605.30283","title":"mcp-proto-okn: Natural-language access to open scientific knowledge graphs through the Model Context Protocol","display_name":"mcp-proto-okn: Natural-language access to open scientific knowledge graphs through the Model Context Protocol","publication_year":2026,"publication_date":"2026-05-28","ids":{"openalex":"https://openalex.org/W7162802301","doi":"https://doi.org/10.48550/arxiv.2605.30283"},"language":null,"primary_location":{"id":"doi:10.48550/arxiv.2605.30283","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2605.30283","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":"Preprint"},"type":"preprint","indexed_in":["datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.48550/arxiv.2605.30283","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070583038","display_name":"Peter W. Rose","orcid":"https://orcid.org/0000-0001-9981-9750"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rose, Peter W.","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5137377013","display_name":"Benjamin M. Good","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Good, Benjamin M.","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5137336906","display_name":"Amanda M. Saravia-Butler","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Saravia-Butler, Amanda M.","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104110866","display_name":"Charlotte A. Nelson","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Nelson, Charlotte A.","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5137396781","display_name":"James P. Balhoff","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Balhoff, James P.","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5137359464","display_name":"Yaphet Kebede","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Kebede, Yaphet","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051806625","display_name":"Patricia L. Whetzel","orcid":"https://orcid.org/0000-0002-3458-4839"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Whetzel, Patricia L.","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5124230206","display_name":"Christopher Bizon","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Bizon, Christopher","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045408201","display_name":"Andrew I. Su","orcid":"https://orcid.org/0000-0002-9859-4104"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Su, Andrew I.","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5137371602","display_name":"Sergio E. Baranzini","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Baranzini, Sergio E.","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/T11273","display_name":"Advanced Graph Neural Networks","score":0.32670000195503235,"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/T11273","display_name":"Advanced Graph Neural Networks","score":0.32670000195503235,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.2451000064611435,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0649000033736229,"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/sparql","display_name":"SPARQL","score":0.7903000116348267},{"id":"https://openalex.org/keywords/knowledge-graph","display_name":"Knowledge graph","score":0.6549000144004822},{"id":"https://openalex.org/keywords/schema","display_name":"Schema (genetic algorithms)","score":0.5307999849319458},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.4487000107765198},{"id":"https://openalex.org/keywords/protocol","display_name":"Protocol (science)","score":0.4325999915599823},{"id":"https://openalex.org/keywords/rdf","display_name":"RDF","score":0.4171000123023987},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.4009999930858612},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.3840999901294708}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8162000179290771},{"id":"https://openalex.org/C41009113","wikidata":"https://www.wikidata.org/wiki/Q54871","display_name":"SPARQL","level":4,"score":0.7903000116348267},{"id":"https://openalex.org/C2987255567","wikidata":"https://www.wikidata.org/wiki/Q33002955","display_name":"Knowledge graph","level":2,"score":0.6549000144004822},{"id":"https://openalex.org/C52146309","wikidata":"https://www.wikidata.org/wiki/Q7431116","display_name":"Schema (genetic algorithms)","level":2,"score":0.5307999849319458},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.510699987411499},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.4487000107765198},{"id":"https://openalex.org/C2780385302","wikidata":"https://www.wikidata.org/wiki/Q367158","display_name":"Protocol (science)","level":3,"score":0.4325999915599823},{"id":"https://openalex.org/C147497476","wikidata":"https://www.wikidata.org/wiki/Q54872","display_name":"RDF","level":3,"score":0.4171000123023987},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.4009999930858612},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.3840999901294708},{"id":"https://openalex.org/C234837","wikidata":"https://www.wikidata.org/wiki/Q1420493","display_name":"Conceptual graph","level":3,"score":0.38280001282691956},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.37619999051094055},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3637000024318695},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.3571000099182129},{"id":"https://openalex.org/C133112747","wikidata":"https://www.wikidata.org/wiki/Q7251931","display_name":"Protocol analysis","level":2,"score":0.33160001039505005},{"id":"https://openalex.org/C93996380","wikidata":"https://www.wikidata.org/wiki/Q44127","display_name":"Server","level":2,"score":0.3222000002861023},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.3077999949455261},{"id":"https://openalex.org/C2984917352","wikidata":"https://www.wikidata.org/wiki/Q12772819","display_name":"Scientific discovery","level":2,"score":0.2969000041484833},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2953000068664551},{"id":"https://openalex.org/C176225458","wikidata":"https://www.wikidata.org/wiki/Q595971","display_name":"Graph database","level":3,"score":0.2863999903202057},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.27570000290870667},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.26759999990463257},{"id":"https://openalex.org/C69075417","wikidata":"https://www.wikidata.org/wiki/Q515701","display_name":"Linked data","level":3,"score":0.26510000228881836},{"id":"https://openalex.org/C192028432","wikidata":"https://www.wikidata.org/wiki/Q845739","display_name":"Query language","level":2,"score":0.262800008058548},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.2605000138282776},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.25699999928474426}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.48550/arxiv.2605.30283","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2605.30283","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":"Preprint"}],"best_oa_location":{"id":"doi:10.48550/arxiv.2605.30283","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2605.30283","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":"Preprint"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/4","display_name":"Quality Education","score":0.5068762898445129}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":[],"abstract_inverted_index":{"MCP":[0],"Server":[1],"Proto-OKN":[2],"(mcp-proto-okn)":[3],"is":[4,57,66],"a":[5],"Python-based":[6],"Model":[7],"Context":[8],"Protocol":[9],"server":[10,28],"that":[11],"enables":[12],"AI":[13],"assistants":[14],"to":[15,46],"discover,":[16],"inspect,":[17],"query":[18],"and":[19,40,53,65,74],"integrate":[20],"scientific":[21,54],"knowledge":[22,48],"graphs":[23],"through":[24],"natural":[25],"language.":[26],"The":[27],"provides":[29],"graph":[30,49],"routing,":[31],"schema":[32],"inspection,":[33],"SPARQL":[34],"execution,":[35],"ontology":[36],"expansion,":[37],"multi-graph":[38],"querying,":[39],"transcript":[41],"generation,":[42],"lowering":[43],"the":[44,62,81],"barrier":[45],"cross-domain":[47],"analysis":[50,76],"for":[51],"biomedical":[52],"users.":[55],"mcp-proto-okn":[56],"implemented":[58],"in":[59,80],"Python":[60],"using":[61],"FastMCP":[63],"framework":[64],"available":[67],"at":[68],"https://github.com/sbl-sdsc/mcp-proto-okn.":[69],"Documentation,":[70],"client":[71],"configuration":[72],"instructions,":[73],"example":[75],"transcripts":[77],"are":[78],"provided":[79],"GitHub":[82],"repository.":[83]},"counts_by_year":[],"updated_date":"2026-07-01T06:00:48.157686","created_date":"2026-05-30T00:00:00"}
