{"id":"https://openalex.org/W2102916587","doi":"https://doi.org/10.1093/bioinformatics/btp523","title":"Saint: a lightweight integration environment for model annotation","display_name":"Saint: a lightweight integration environment for model annotation","publication_year":2009,"publication_date":"2009-09-05","ids":{"openalex":"https://openalex.org/W2102916587","doi":"https://doi.org/10.1093/bioinformatics/btp523","mag":"2102916587","pmid":"https://pubmed.ncbi.nlm.nih.gov/19734151"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp523","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp523","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/22/3026/16890741/btp523.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/25/22/3026/16890741/btp523.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5087271600","display_name":"Allyson Lister","orcid":"https://orcid.org/0000-0002-7702-4495"},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Allyson L. Lister","raw_affiliation_strings":["1 Centre for Integrated Systems Biology of Ageing and Nutrition, Newcastle University and 2School of Computing Science, Newcastle University, Newcastle Upon Tyne, UK"],"affiliations":[{"raw_affiliation_string":"1 Centre for Integrated Systems Biology of Ageing and Nutrition, Newcastle University and 2School of Computing Science, Newcastle University, Newcastle Upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109242321","display_name":"Matthew Pocock","orcid":null},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Matthew Pocock","raw_affiliation_strings":["1 Centre for Integrated Systems Biology of Ageing and Nutrition, Newcastle University and 2School of Computing Science, Newcastle University, Newcastle Upon Tyne, UK"],"affiliations":[{"raw_affiliation_string":"1 Centre for Integrated Systems Biology of Ageing and Nutrition, Newcastle University and 2School of Computing Science, Newcastle University, Newcastle Upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090223325","display_name":"Morgan L. Taschuk","orcid":"https://orcid.org/0000-0003-0677-6902"},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Morgan Taschuk","raw_affiliation_strings":["1 Centre for Integrated Systems Biology of Ageing and Nutrition, Newcastle University and 2School of Computing Science, Newcastle University, Newcastle Upon Tyne, UK"],"affiliations":[{"raw_affiliation_string":"1 Centre for Integrated Systems Biology of Ageing and Nutrition, Newcastle University and 2School of Computing Science, Newcastle University, Newcastle Upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089978830","display_name":"Anil Wipat","orcid":"https://orcid.org/0000-0001-7310-4191"},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Anil Wipat","raw_affiliation_strings":["1 Centre for Integrated Systems Biology of Ageing and Nutrition, Newcastle University and 2School of Computing Science, Newcastle University, Newcastle Upon Tyne, UK"],"affiliations":[{"raw_affiliation_string":"1 Centre for Integrated Systems Biology of Ageing and Nutrition, Newcastle University and 2School of Computing Science, Newcastle University, Newcastle Upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5087271600"],"corresponding_institution_ids":["https://openalex.org/I84884186"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":4.9766,"has_fulltext":false,"cited_by_count":27,"citation_normalized_percentile":{"value":0.95250989,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"25","issue":"22","first_page":"3026","last_page":"3027"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11450","display_name":"Model-Driven Software Engineering Techniques","score":0.9976999759674072,"subfield":{"id":"https://openalex.org/subfields/1712","display_name":"Software"},"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/T11450","display_name":"Model-Driven Software Engineering Techniques","score":0.9976999759674072,"subfield":{"id":"https://openalex.org/subfields/1712","display_name":"Software"},"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/T11195","display_name":"Simulation Techniques and Applications","score":0.994700014591217,"subfield":{"id":"https://openalex.org/subfields/1803","display_name":"Management Science and Operations Research"},"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/T13286","display_name":"Modeling and Simulation Systems","score":0.9921000003814697,"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/annotation","display_name":"Annotation","score":0.8111186623573303},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7225746512413025},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4115981161594391},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.38475412130355835},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3063308596611023},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.26276203989982605}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.8111186623573303},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7225746512413025},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4115981161594391},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.38475412130355835},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3063308596611023},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.26276203989982605}],"mesh":[{"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":"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","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":"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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btp523","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp523","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/22/3026/16890741/btp523.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19734151","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19734151","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2773255","is_oa":true,"landing_page_url":"http://doi.org/10.1093/bioinformatics/btp523","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btp523","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp523","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/22/3026/16890741/btp523.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G26848450","display_name":null,"funder_award_id":"BB/F006063/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320320295","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2102916587.pdf","grobid_xml":"https://content.openalex.org/works/W2102916587.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W2001758733","https://openalex.org/W2020561965","https://openalex.org/W2103017472","https://openalex.org/W2113613985","https://openalex.org/W2133938042","https://openalex.org/W2134221731","https://openalex.org/W2135290856","https://openalex.org/W2146744007","https://openalex.org/W2150908245","https://openalex.org/W2153091158","https://openalex.org/W2161062388","https://openalex.org/W4211054902"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2392921965","https://openalex.org/W2358755282","https://openalex.org/W2625833328","https://openalex.org/W1533177136","https://openalex.org/W4380994516"],"abstract_inverted_index":{"Saint":[0,39],"is":[1,14,31],"freely":[2,32],"available":[3,33],"for":[4,34],"use":[5],"on":[6,51],"the":[7],"web":[8,12,40],"at":[9,36],"http://www.cisban.ac.uk/saint.":[10],"The":[11,27,38],"application":[13],"implemented":[15],"in":[16],"Google":[17],"Web":[18],"Toolkit":[19],"and":[20,47,56],"Tomcat,":[21],"with":[22],"all":[23],"major":[24],"browsers":[25],"supported.":[26],"Java":[28],"source":[29],"code":[30],"download":[35],"http://saint-annotate.sourceforge.net.":[37],"server":[41],"requires":[42],"an":[43],"installation":[44],"of":[45],"libSBML":[46],"has":[48],"been":[49],"tested":[50],"Linux":[52],"(32-bit":[53],"Ubuntu":[54],"8.10":[55],"9.04).":[57]},"counts_by_year":[{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2013,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
