{"id":"https://openalex.org/W2076373433","doi":"https://doi.org/10.1186/1471-2105-12-351","title":"Knowledge engineering tools for reasoning with scientific observations and interpretations: a neural connectivity use case","display_name":"Knowledge engineering tools for reasoning with scientific observations and interpretations: a neural connectivity use case","publication_year":2011,"publication_date":"2011-08-22","ids":{"openalex":"https://openalex.org/W2076373433","doi":"https://doi.org/10.1186/1471-2105-12-351","mag":"2076373433","pmid":"https://pubmed.ncbi.nlm.nih.gov/21859449"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-12-351","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-351","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-351","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-351","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103380057","display_name":"Thomas A. Russ","orcid":null},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Thomas A Russ","raw_affiliation_strings":["Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA","Information Sciences Institute, University of Southern California, Marina Del Rey, CA, USA"],"affiliations":[{"raw_affiliation_string":"Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA","institution_ids":["https://openalex.org/I1174212"]},{"raw_affiliation_string":"Information Sciences Institute, University of Southern California, Marina Del Rey, CA, USA","institution_ids":["https://openalex.org/I1174212"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112629679","display_name":"C. R. Ramakrishnan","orcid":null},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cartic Ramakrishnan","raw_affiliation_strings":["Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA","Information Sciences Institute, University of Southern California, Marina Del Rey, USA"],"affiliations":[{"raw_affiliation_string":"Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA","institution_ids":["https://openalex.org/I1174212"]},{"raw_affiliation_string":"Information Sciences Institute, University of Southern California, Marina Del Rey, USA","institution_ids":["https://openalex.org/I1174212"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060225743","display_name":"Eduard Hovy","orcid":"https://orcid.org/0000-0002-3270-7903"},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eduard H Hovy","raw_affiliation_strings":["Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA","Information Sciences Institute, University of Southern California, Marina Del Rey, USA"],"affiliations":[{"raw_affiliation_string":"Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA","institution_ids":["https://openalex.org/I1174212"]},{"raw_affiliation_string":"Information Sciences Institute, University of Southern California, Marina Del Rey, USA","institution_ids":["https://openalex.org/I1174212"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006605981","display_name":"Mihail Bota","orcid":"https://orcid.org/0000-0002-6499-162X"},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Mihail Bota","raw_affiliation_strings":["Brain Architecture Group, University of Southern California, Los Angeles, CA, USA","Brain Architecture Group, University of Southern California, Los Angeles, USA"],"affiliations":[{"raw_affiliation_string":"Brain Architecture Group, University of Southern California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I1174212"]},{"raw_affiliation_string":"Brain Architecture Group, University of Southern California, Los Angeles, USA","institution_ids":["https://openalex.org/I1174212"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5087346345","display_name":"Gully Burns","orcid":"https://orcid.org/0000-0003-1493-865X"},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gully APC Burns","raw_affiliation_strings":["Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA","Information Sciences Institute, University of Southern California, Marina Del Rey, USA"],"affiliations":[{"raw_affiliation_string":"Information Sciences Institute, University of Southern California, Marina del Rey, CA, USA","institution_ids":["https://openalex.org/I1174212"]},{"raw_affiliation_string":"Information Sciences Institute, University of Southern California, Marina Del Rey, USA","institution_ids":["https://openalex.org/I1174212"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5103380057"],"corresponding_institution_ids":["https://openalex.org/I1174212"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.4012,"has_fulltext":true,"cited_by_count":38,"citation_normalized_percentile":{"value":0.89004509,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"12","issue":"1","first_page":"351","last_page":"351"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9936000108718872,"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"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9936000108718872,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.9442999958992004,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.9319000244140625,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8075416088104248},{"id":"https://openalex.org/keywords/knowledge-representation-and-reasoning","display_name":"Knowledge representation and reasoning","score":0.49703505635261536},{"id":"https://openalex.org/keywords/table","display_name":"Table (database)","score":0.42159321904182434},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.42051684856414795},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.2988777160644531}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8075416088104248},{"id":"https://openalex.org/C161301231","wikidata":"https://www.wikidata.org/wiki/Q3478658","display_name":"Knowledge representation and reasoning","level":2,"score":0.49703505635261536},{"id":"https://openalex.org/C45235069","wikidata":"https://www.wikidata.org/wiki/Q278425","display_name":"Table (database)","level":2,"score":0.42159321904182434},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.42051684856414795},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.2988777160644531}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001931","descriptor_name":"Brain Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D001931","descriptor_name":"Brain Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D001931","descriptor_name":"Brain Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051188","descriptor_name":"Knowledge Bases","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-12-351","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-351","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-351","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21859449","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21859449","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:2f963fcff18746c2bd1fbf09af729429","is_oa":true,"landing_page_url":"https://doaj.org/article/2f963fcff18746c2bd1fbf09af729429","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 12, Iss 1, p 351 (2011)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:3176268","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3176268","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-12-351","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-351","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-12-351","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2032847650","display_name":null,"funder_award_id":"U24 RR025736-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3651620967","display_name":null,"funder_award_id":"U24 RR025736","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7061603871","display_name":null,"funder_award_id":"1 U24 RR025736-01","funder_id":"https://openalex.org/F4320337375","funder_display_name":"National Center for Research Resources"},{"id":"https://openalex.org/G838513495","display_name":null,"funder_award_id":"1 U24 RR025736-01","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337375","display_name":"National Center for Research Resources","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2076373433.pdf","grobid_xml":"https://content.openalex.org/works/W2076373433.grobid-xml"},"referenced_works_count":72,"referenced_works":["https://openalex.org/W57881341","https://openalex.org/W419441487","https://openalex.org/W614895547","https://openalex.org/W617643949","https://openalex.org/W1501546233","https://openalex.org/W1550232114","https://openalex.org/W1561585380","https://openalex.org/W1566743778","https://openalex.org/W1577107410","https://openalex.org/W1581613712","https://openalex.org/W1672014239","https://openalex.org/W1754668934","https://openalex.org/W1817419366","https://openalex.org/W1861830827","https://openalex.org/W1969013163","https://openalex.org/W1974385176","https://openalex.org/W1975942563","https://openalex.org/W1980009209","https://openalex.org/W1986017913","https://openalex.org/W1997097282","https://openalex.org/W1997381076","https://openalex.org/W1998017916","https://openalex.org/W1999653836","https://openalex.org/W2003302766","https://openalex.org/W2004884668","https://openalex.org/W2009577334","https://openalex.org/W2028925477","https://openalex.org/W2038665424","https://openalex.org/W2040898679","https://openalex.org/W2047968968","https://openalex.org/W2050355460","https://openalex.org/W2052042865","https://openalex.org/W2055651914","https://openalex.org/W2064440086","https://openalex.org/W2065915881","https://openalex.org/W2076327529","https://openalex.org/W2085989895","https://openalex.org/W2088199798","https://openalex.org/W2090083575","https://openalex.org/W2096525273","https://openalex.org/W2097056536","https://openalex.org/W2098580305","https://openalex.org/W2100657212","https://openalex.org/W2100871981","https://openalex.org/W2102771627","https://openalex.org/W2104990432","https://openalex.org/W2106356140","https://openalex.org/W2115570304","https://openalex.org/W2121588207","https://openalex.org/W2130430745","https://openalex.org/W2136358012","https://openalex.org/W2137653635","https://openalex.org/W2138223008","https://openalex.org/W2138996400","https://openalex.org/W2142745813","https://openalex.org/W2143543488","https://openalex.org/W2145687948","https://openalex.org/W2146693559","https://openalex.org/W2149378423","https://openalex.org/W2154282155","https://openalex.org/W2160695241","https://openalex.org/W2163670493","https://openalex.org/W2172143128","https://openalex.org/W2501077229","https://openalex.org/W2582808356","https://openalex.org/W2978847650","https://openalex.org/W2983059540","https://openalex.org/W4231041617","https://openalex.org/W4242779638","https://openalex.org/W4250297812","https://openalex.org/W4290103054","https://openalex.org/W4388247264"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W2350741829","https://openalex.org/W2530322880","https://openalex.org/W1596801655"],"abstract_inverted_index":{"We":[0,32],"first":[1],"introduce":[2],"the":[3,35,43,65],"KEfED":[4],"approach":[5,9],"as":[6,15,49],"a":[7,16,50,59],"general":[8],"and":[10,37,54],"describe":[11,34],"its":[12],"possible":[13,51],"role":[14],"way":[17],"of":[18,24,29,39],"introducing":[19],"structured":[20],"reasoning":[21,56],"into":[22],"models":[23,28],"argumentation":[25],"within":[26],"new":[27],"scientific":[30],"publication.":[31],"then":[33],"design":[36],"implementation":[38],"our":[40],"example":[41],"application:":[42],"BioScholar":[44],"software.":[45],"This":[46],"is":[47],"presented":[48],"biocuration":[52],"interface":[53],"supplementary":[55],"toolkit":[57],"for":[58],"larger,":[60],"more":[61],"specialized":[62],"bioinformatics":[63],"system:":[64],"Brain":[66],"Architecture":[67],"Management":[68],"System":[69],"(BAMS).":[70]},"counts_by_year":[{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":9}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
