{"id":"https://openalex.org/W2090969569","doi":"https://doi.org/10.1093/nar/gkm327","title":"Onto-Tools: new additions and improvements in 2006","display_name":"Onto-Tools: new additions and improvements in 2006","publication_year":2007,"publication_date":"2007-05-08","ids":{"openalex":"https://openalex.org/W2090969569","doi":"https://doi.org/10.1093/nar/gkm327","mag":"2090969569","pmid":"https://pubmed.ncbi.nlm.nih.gov/17584796"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkm327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm327","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W206/9584806/gkm327.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W206/9584806/gkm327.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5083763463","display_name":"Purvesh Khatri","orcid":"https://orcid.org/0000-0002-4143-4708"},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"P. Khatri","raw_affiliation_strings":["Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202, USA","Department of Computer Science, Wayne State University  431 State Hall, Detroit, MI 48202, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202, USA","institution_ids":["https://openalex.org/I185443292"]},{"raw_affiliation_string":"Department of Computer Science, Wayne State University  431 State Hall, Detroit, MI 48202, USA","institution_ids":["https://openalex.org/I185443292"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001054866","display_name":"C\u0103lin Voichi\u0163a","orcid":null},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"C. Voichita","raw_affiliation_strings":["Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]},{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010627290","display_name":"Khalid Kattan","orcid":null},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"K. Kattan","raw_affiliation_strings":["Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]},{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034364137","display_name":"Nadeem A. Ansari","orcid":"https://orcid.org/0000-0002-0493-6813"},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"N. Ansari","raw_affiliation_strings":["Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]},{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049619298","display_name":"Ashok Khatri","orcid":"https://orcid.org/0000-0003-4740-3846"},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. Khatri","raw_affiliation_strings":["Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]},{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037436368","display_name":"Constantin Georgescu","orcid":"https://orcid.org/0000-0003-1389-8342"},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"C. Georgescu","raw_affiliation_strings":["Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]},{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043404288","display_name":"Adi L. Tarca","orcid":"https://orcid.org/0000-0003-1712-7588"},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. L. Tarca","raw_affiliation_strings":["Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]},{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006190733","display_name":"Sorin Dr\u0103ghici","orcid":"https://orcid.org/0000-0002-0786-8377"},"institutions":[{"id":"https://openalex.org/I185443292","display_name":"Wayne State University","ror":"https://ror.org/01070mq45","country_code":"US","type":"education","lineage":["https://openalex.org/I185443292"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"S. Draghici","raw_affiliation_strings":["Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI, 48202 and 2 Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]},{"raw_affiliation_string":"Department of Computer Science, Wayne State University, 431 State Hall, Detroit, MI 48202 and 2Perinatology Research Branch-NIH/NICHD, 4 Brush, 3990 John R, Detroit, MI 48201, USA","institution_ids":["https://openalex.org/I185443292"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5006190733"],"corresponding_institution_ids":["https://openalex.org/I185443292"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":5.7874,"has_fulltext":true,"cited_by_count":95,"citation_normalized_percentile":{"value":0.9702782,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"35","issue":"Web Server","first_page":"W206","last_page":"W211"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9972000122070312,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9937999844551086,"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/suite","display_name":"Suite","score":0.7949776649475098},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.7928164601325989},{"id":"https://openalex.org/keywords/profiling","display_name":"Profiling (computer programming)","score":0.6260239481925964},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.561331033706665},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5128591060638428},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.46152442693710327},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.4505055248737335},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.44695740938186646},{"id":"https://openalex.org/keywords/domain","display_name":"Domain (mathematical analysis)","score":0.41680243611335754},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.3868514597415924},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.36087697744369507},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.32630354166030884},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14272475242614746},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.13355550169944763},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08023375272750854}],"concepts":[{"id":"https://openalex.org/C79581498","wikidata":"https://www.wikidata.org/wiki/Q1367530","display_name":"Suite","level":2,"score":0.7949776649475098},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.7928164601325989},{"id":"https://openalex.org/C187191949","wikidata":"https://www.wikidata.org/wiki/Q1138496","display_name":"Profiling (computer programming)","level":2,"score":0.6260239481925964},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.561331033706665},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5128591060638428},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.46152442693710327},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.4505055248737335},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.44695740938186646},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.41680243611335754},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.3868514597415924},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.36087697744369507},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.32630354166030884},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14272475242614746},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13355550169944763},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08023375272750854},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0}],"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":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005796","descriptor_name":"Genes","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":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000639","qualifier_name":"trends","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":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1093/nar/gkm327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm327","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W206/9584806/gkm327.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:17584796","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17584796","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.279.9433","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.279.9433","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/e5/68/Nucleic_Acids_Res_2007_Jul_35(Web_Server_issue)_W206-W211.tar.gz","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.733.1879","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.733.1879","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://vortex.cs.wayne.edu/papers/AdditionsImprovements_2006.pdf","raw_type":"text"},{"id":"pmh:oai:europepmc.org:1349270","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC1933142","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:1933142","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1933142","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkm327","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkm327","pdf_url":"https://academic.oup.com/nar/article-pdf/35/suppl_2/W206/9584806/gkm327.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","display_name":"Industry, innovation and infrastructure","score":0.46000000834465027}],"awards":[{"id":"https://openalex.org/G4834028135","display_name":"SoD: Design of Incremental Change","funder_award_id":"0438970","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G6154735872","display_name":"Novel Tools for the Vertical Analysis of Genomic Data","funder_award_id":"0234806","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G65507591","display_name":null,"funder_award_id":"CA022453","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320306078","display_name":"U.S. Department of Defense","ror":"https://ror.org/0447fe631"},{"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"},{"id":"https://openalex.org/F4320337398","display_name":"Division of Biological Infrastructure","ror":"https://ror.org/04qn9mx93"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2090969569.pdf","grobid_xml":"https://content.openalex.org/works/W2090969569.grobid-xml"},"referenced_works_count":26,"referenced_works":["https://openalex.org/W1535641839","https://openalex.org/W1990144966","https://openalex.org/W1998902445","https://openalex.org/W2021239799","https://openalex.org/W2094697698","https://openalex.org/W2100474154","https://openalex.org/W2110280725","https://openalex.org/W2113888028","https://openalex.org/W2116525802","https://openalex.org/W2126382397","https://openalex.org/W2127938920","https://openalex.org/W2131989143","https://openalex.org/W2132206153","https://openalex.org/W2135230352","https://openalex.org/W2139084975","https://openalex.org/W2145825942","https://openalex.org/W2147714160","https://openalex.org/W2150908245","https://openalex.org/W2151225518","https://openalex.org/W2152960199","https://openalex.org/W2159482845","https://openalex.org/W2159675211","https://openalex.org/W2169385519","https://openalex.org/W2315135172","https://openalex.org/W2416232867","https://openalex.org/W4232903880"],"related_works":["https://openalex.org/W2362192218","https://openalex.org/W2393185060","https://openalex.org/W2046177308","https://openalex.org/W2157792067","https://openalex.org/W4255784183","https://openalex.org/W263755996","https://openalex.org/W4210408238","https://openalex.org/W757858691","https://openalex.org/W2313676623","https://openalex.org/W2125383951"],"abstract_inverted_index":{"Onto-Tools":[0,107,138],"is":[1,64],"a":[2,21,52,65],"freely":[3,140],"available":[4,92,128,141],"web-accessible":[5],"software":[6],"suite,":[7],"composed":[8],"of":[9,75],"an":[10],"annotation":[11,103],"database":[12],"and":[13,35],"nine":[14],"complementary":[15],"data-mining":[16],"tools.":[17],"This":[18],"article":[19],"describes":[20],"new":[22,30],"tool,":[23],"Onto-Express-to-go":[24],"(OE2GO),":[25],"as":[26,28],"well":[27],"some":[29],"features":[31],"implemented":[32],"in":[33,51,60,93],"Pathway-Express":[34,41],"Onto-Miner":[36],"over":[37],"the":[38,56,61,81,94,106,116,125],"past":[39],"year.":[40],"(PE)":[42],"has":[43],"been":[44],"enhanced":[45],"to":[46,100,118],"identify":[47],"significantly":[48],"perturbed":[49],"pathways":[50],"given":[53],"condition":[54],"using":[55,70,134],"differentially":[57],"expressed":[58],"genes":[59],"input.":[62],"OE2GO":[63,97,123],"tool":[66,77],"for":[67,86,129],"functional":[68,126],"profiling":[69,127],"custom":[71,112],"annotations.":[72,113],"The":[73,137],"development":[74],"this":[76],"was":[78],"aimed":[79],"at":[80,142],"researchers":[82,99],"working":[83],"with":[84,132],"organisms":[85],"which":[87],"annotations":[88,133],"are":[89,139],"not":[90],"yet":[91],"public":[95],"domain.":[96],"allows":[98],"use":[101,119],"either":[102],"data":[104],"from":[105],"database,":[108,122],"or":[109],"their":[110],"own":[111],"By":[114],"removing":[115],"necessity":[117],"any":[120,135],"specific":[121],"makes":[124],"all":[130],"organisms,":[131],"ontology.":[136],"http://vortex.cs.wayne.edu/projects.htm.":[143]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":8},{"year":2013,"cited_by_count":8},{"year":2012,"cited_by_count":4}],"updated_date":"2026-06-16T07:32:37.131356","created_date":"2025-10-10T00:00:00"}
