{"id":"https://openalex.org/W2949574480","doi":"https://doi.org/10.1186/s12859-018-2126-1","title":"GROOLS: reactive graph reasoning for genome annotation through biological processes","display_name":"GROOLS: reactive graph reasoning for genome annotation through biological processes","publication_year":2018,"publication_date":"2018-04-11","ids":{"openalex":"https://openalex.org/W2949574480","doi":"https://doi.org/10.1186/s12859-018-2126-1","mag":"2949574480","pmid":"https://pubmed.ncbi.nlm.nih.gov/29642842"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2126-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2126-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2126-1","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/track/pdf/10.1186/s12859-018-2126-1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5046396850","display_name":"Jonathan Mercier","orcid":"https://orcid.org/0000-0001-5905-2700"},"institutions":[{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"funder","lineage":["https://openalex.org/I2738703131"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210128565","display_name":"CEA Paris-Saclay","ror":"https://ror.org/03n15ch10","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210128565"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210115028","display_name":"Genoscope","ror":"https://ror.org/028pnqf58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210115028"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Jonathan Mercier","raw_affiliation_strings":["LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France. jonathan.mercier.fr@gmail.com","LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d\u2019Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France"],"affiliations":[{"raw_affiliation_string":"LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France. jonathan.mercier.fr@gmail.com","institution_ids":[]},{"raw_affiliation_string":"LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d\u2019Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210115028","https://openalex.org/I4210128565","https://openalex.org/I277688954","https://openalex.org/I2738703131"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022206894","display_name":"Adrien Josso","orcid":null},"institutions":[{"id":"https://openalex.org/I4210128565","display_name":"CEA Paris-Saclay","ror":"https://ror.org/03n15ch10","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210128565"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210115028","display_name":"Genoscope","ror":"https://ror.org/028pnqf58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210115028"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"funder","lineage":["https://openalex.org/I2738703131"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Adrien Josso","raw_affiliation_strings":["LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d\u2019Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France"],"affiliations":[{"raw_affiliation_string":"LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","institution_ids":[]},{"raw_affiliation_string":"LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d\u2019Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210115028","https://openalex.org/I4210128565","https://openalex.org/I277688954","https://openalex.org/I2738703131"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028317703","display_name":"Claudine M\u00e9digue","orcid":"https://orcid.org/0000-0002-3905-1054"},"institutions":[{"id":"https://openalex.org/I4210128565","display_name":"CEA Paris-Saclay","ror":"https://ror.org/03n15ch10","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210128565"]},{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210115028","display_name":"Genoscope","ror":"https://ror.org/028pnqf58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210115028"]},{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"funder","lineage":["https://openalex.org/I2738703131"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Claudine M\u00e9digue","raw_affiliation_strings":["LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d\u2019Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France"],"affiliations":[{"raw_affiliation_string":"LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","institution_ids":[]},{"raw_affiliation_string":"LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d\u2019Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210115028","https://openalex.org/I4210128565","https://openalex.org/I277688954","https://openalex.org/I2738703131"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5072154324","display_name":"David Vallenet","orcid":"https://orcid.org/0000-0001-6648-0332"},"institutions":[{"id":"https://openalex.org/I277688954","display_name":"Universit\u00e9 Paris-Saclay","ror":"https://ror.org/03xjwb503","country_code":"FR","type":"education","lineage":["https://openalex.org/I277688954"]},{"id":"https://openalex.org/I4210115028","display_name":"Genoscope","ror":"https://ror.org/028pnqf58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210115028"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210128565","display_name":"CEA Paris-Saclay","ror":"https://ror.org/03n15ch10","country_code":"FR","type":"government","lineage":["https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210128565"]},{"id":"https://openalex.org/I2738703131","display_name":"Commissariat \u00e0 l'\u00c9nergie Atomique et aux \u00c9nergies Alternatives","ror":"https://ror.org/00jjx8s55","country_code":"FR","type":"funder","lineage":["https://openalex.org/I2738703131"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"David Vallenet","raw_affiliation_strings":["LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d\u2019Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France"],"affiliations":[{"raw_affiliation_string":"LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d'Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","institution_ids":[]},{"raw_affiliation_string":"LABGeM, G\u00e9nomique M\u00e9tabolique, Genoscope, Institut Fran\u00e7ois Jacob, CEA, CNRS, Universit\u00e9 d\u2019Evry, Universit\u00e9 Paris-Saclay, 2 rue Gaston Cr\u00e9mieux, Evry, 91057, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I4210115028","https://openalex.org/I4210128565","https://openalex.org/I277688954","https://openalex.org/I2738703131"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5046396850"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I2738703131","https://openalex.org/I277688954","https://openalex.org/I4210115028","https://openalex.org/I4210128565"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.0927,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.50385878,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"19","issue":"1","first_page":"132","last_page":"132"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9998000264167786,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9998000264167786,"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":0.9929999709129333,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9717000126838684,"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/annotation","display_name":"Annotation","score":0.6608748435974121},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6500310897827148},{"id":"https://openalex.org/keywords/biological-database","display_name":"Biological database","score":0.5513349771499634},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.451751172542572},{"id":"https://openalex.org/keywords/organism","display_name":"Organism","score":0.44529491662979126},{"id":"https://openalex.org/keywords/consistency","display_name":"Consistency (knowledge bases)","score":0.44275790452957153},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.44207167625427246},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.43371957540512085},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3625994920730591},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.27053970098495483},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2593398988246918},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24642568826675415},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.2428387701511383},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10723990201950073}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6608748435974121},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6500310897827148},{"id":"https://openalex.org/C20901353","wikidata":"https://www.wikidata.org/wiki/Q4117139","display_name":"Biological database","level":2,"score":0.5513349771499634},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.451751172542572},{"id":"https://openalex.org/C137858568","wikidata":"https://www.wikidata.org/wiki/Q7239","display_name":"Organism","level":2,"score":0.44529491662979126},{"id":"https://openalex.org/C2776436953","wikidata":"https://www.wikidata.org/wiki/Q5163215","display_name":"Consistency (knowledge bases)","level":2,"score":0.44275790452957153},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.44207167625427246},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.43371957540512085},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3625994920730591},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.27053970098495483},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2593398988246918},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24642568826675415},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.2428387701511383},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10723990201950073},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000150","descriptor_name":"Acinetobacter","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000150","descriptor_name":"Acinetobacter","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000150","descriptor_name":"Acinetobacter","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000150","descriptor_name":"Acinetobacter","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000150","descriptor_name":"Acinetobacter","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001686","descriptor_name":"Biological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001686","descriptor_name":"Biological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001686","descriptor_name":"Biological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001686","descriptor_name":"Biological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001686","descriptor_name":"Biological Phenomena","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003545","descriptor_name":"Cysteine","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":false},{"descriptor_ui":"D003545","descriptor_name":"Cysteine","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":false},{"descriptor_ui":"D003545","descriptor_name":"Cysteine","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":false},{"descriptor_ui":"D003545","descriptor_name":"Cysteine","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","is_major_topic":false},{"descriptor_ui":"D003545","descriptor_name":"Cysteine","qualifier_ui":"Q000096","qualifier_name":"biosynthesis","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":"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":"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":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","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":"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":"D053898","descriptor_name":"Biosynthetic Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053898","descriptor_name":"Biosynthetic Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053898","descriptor_name":"Biosynthetic Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053898","descriptor_name":"Biosynthetic Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053898","descriptor_name":"Biosynthetic Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1186/s12859-018-2126-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2126-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2126-1","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:29642842","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29642842","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:HAL:cea-04313474v1","is_oa":true,"landing_page_url":"https://cea.hal.science/cea-04313474","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2126-1","raw_type":"Journal articles"},{"id":"pmh:oai:doaj.org/article:bd8f6ad3a72043d9a57f87a6dc99ce61","is_oa":true,"landing_page_url":"https://doaj.org/article/bd8f6ad3a72043d9a57f87a6dc99ce61","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 19, Iss 1, Pp 1-12 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:4834594","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC5896057","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:5896057","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5896057","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-018-2126-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2126-1","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2126-1","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":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2949574480.pdf","grobid_xml":"https://content.openalex.org/works/W2949574480.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W1976325156","https://openalex.org/W1982213106","https://openalex.org/W1985512202","https://openalex.org/W2060797027","https://openalex.org/W2078355959","https://openalex.org/W2082428652","https://openalex.org/W2088233901","https://openalex.org/W2095446052","https://openalex.org/W2110523405","https://openalex.org/W2113989263","https://openalex.org/W2114034054","https://openalex.org/W2122613768","https://openalex.org/W2125591244","https://openalex.org/W2128601422","https://openalex.org/W2151023149","https://openalex.org/W2154139219","https://openalex.org/W2224056471","https://openalex.org/W2227395312","https://openalex.org/W2343913565","https://openalex.org/W2543238710","https://openalex.org/W2559088283","https://openalex.org/W2604808360","https://openalex.org/W4210702584","https://openalex.org/W4230770774","https://openalex.org/W4249305556"],"related_works":["https://openalex.org/W4381571608","https://openalex.org/W2936116675","https://openalex.org/W2291027050","https://openalex.org/W2307569040","https://openalex.org/W1018570427","https://openalex.org/W1483126190","https://openalex.org/W2131941936","https://openalex.org/W4214664950","https://openalex.org/W4242570880","https://openalex.org/W2074162075"],"abstract_inverted_index":{"GROOLS":[0],"software":[1],"is":[2],"designed":[3],"to":[4,16],"evaluate":[5],"the":[6,27],"overall":[7],"accuracy":[8],"of":[9,30],"functional":[10,28],"unit":[11],"and":[12],"pathway":[13],"predictions":[14],"according":[15],"organism":[17],"experimental":[18],"data":[19],"like":[20],"growth":[21],"phenotypes.":[22],"It":[23],"assists":[24],"biocurators":[25],"in":[26],"annotation":[29],"proteins":[31],"by":[32],"focusing":[33],"on":[34],"missing":[35],"or":[36],"contradictory":[37],"observations.":[38]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1}],"updated_date":"2026-03-15T09:29:46.208133","created_date":"2025-10-10T00:00:00"}