{"id":"https://openalex.org/W3165529485","doi":"https://doi.org/10.1093/bioinformatics/btab412","title":"Oligator: a flexible interface to draw oligosaccharide structures and generate their theoretical tandem mass spectra","display_name":"Oligator: a flexible interface to draw oligosaccharide structures and generate their theoretical tandem mass spectra","publication_year":2021,"publication_date":"2021-05-28","ids":{"openalex":"https://openalex.org/W3165529485","doi":"https://doi.org/10.1093/bioinformatics/btab412","mag":"3165529485","pmid":"https://pubmed.ncbi.nlm.nih.gov/34050747"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btab412","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab412","pdf_url":null,"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":null,"license_id":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062085234","display_name":"Virginie Lollier","orcid":"https://orcid.org/0000-0002-1248-6701"},"institutions":[{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"funder","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210099947","display_name":"Biopolym\u00e8res Interactions Assemblages","ror":"https://ror.org/013vjwn12","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210099947","https://openalex.org/I4210108720"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Virginie Lollier","raw_affiliation_strings":["INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","INRAE, UR BIA , Nantes F-44316, France"],"affiliations":[{"raw_affiliation_string":"INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"INRAE, UR BIA , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076105827","display_name":"Mathieu Fanuel","orcid":"https://orcid.org/0000-0001-8384-8266"},"institutions":[{"id":"https://openalex.org/I4210099947","display_name":"Biopolym\u00e8res Interactions Assemblages","ror":"https://ror.org/013vjwn12","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210099947","https://openalex.org/I4210108720"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"funder","lineage":["https://openalex.org/I4210088668"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Mathieu Fanuel","raw_affiliation_strings":["INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","INRAE, UR BIA , Nantes F-44316, France"],"affiliations":[{"raw_affiliation_string":"INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"INRAE, UR BIA , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015068416","display_name":"David Ropartz","orcid":"https://orcid.org/0000-0003-4767-6940"},"institutions":[{"id":"https://openalex.org/I4210099947","display_name":"Biopolym\u00e8res Interactions Assemblages","ror":"https://ror.org/013vjwn12","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210099947","https://openalex.org/I4210108720"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"funder","lineage":["https://openalex.org/I4210088668"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"David Ropartz","raw_affiliation_strings":["INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","INRAE, UR BIA , Nantes F-44316, France"],"affiliations":[{"raw_affiliation_string":"INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"INRAE, UR BIA , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000575007","display_name":"Dominique Tessier","orcid":"https://orcid.org/0000-0003-1503-7693"},"institutions":[{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"funder","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210099947","display_name":"Biopolym\u00e8res Interactions Assemblages","ror":"https://ror.org/013vjwn12","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210099947","https://openalex.org/I4210108720"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Dominique Tessier","raw_affiliation_strings":["INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","INRAE, UR BIA , Nantes F-44316, France"],"affiliations":[{"raw_affiliation_string":"INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"INRAE, UR BIA , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5000860024","display_name":"H\u00e9l\u00e8ne Rogniaux","orcid":"https://orcid.org/0000-0001-6083-2034"},"institutions":[{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"funder","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210099947","display_name":"Biopolym\u00e8res Interactions Assemblages","ror":"https://ror.org/013vjwn12","country_code":"FR","type":"facility","lineage":["https://openalex.org/I4210088668","https://openalex.org/I4210099947","https://openalex.org/I4210108720"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"H\u00e9l\u00e8ne Rogniaux","raw_affiliation_strings":["INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","INRAE, UR BIA , Nantes F-44316, France"],"affiliations":[{"raw_affiliation_string":"INRAE, PROBE Research Infrastructure, BIBS Facility , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"INRAE, UR BIA , Nantes F-44316, France","institution_ids":["https://openalex.org/I4210099947","https://openalex.org/I4210088668"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5062085234"],"corresponding_institution_ids":["https://openalex.org/I4210088668","https://openalex.org/I4210099947"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.04204551,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"37","issue":"22","first_page":"4261","last_page":"4262"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9997000098228455,"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/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9997000098228455,"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/T11131","display_name":"Proteoglycans and glycosaminoglycans research","score":0.9933000206947327,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9884999990463257,"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/tandem","display_name":"Tandem","score":0.767358660697937},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.7374235987663269},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5670878887176514},{"id":"https://openalex.org/keywords/oligosaccharide","display_name":"Oligosaccharide","score":0.5152575969696045},{"id":"https://openalex.org/keywords/mass-spectrum","display_name":"Mass spectrum","score":0.49563729763031006},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3783368468284607},{"id":"https://openalex.org/keywords/molecule","display_name":"Molecule","score":0.22184798121452332},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.2086397409439087},{"id":"https://openalex.org/keywords/mass-spectrometry","display_name":"Mass spectrometry","score":0.18624809384346008},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.14477872848510742},{"id":"https://openalex.org/keywords/chromatography","display_name":"Chromatography","score":0.13278773427009583},{"id":"https://openalex.org/keywords/organic-chemistry","display_name":"Organic chemistry","score":0.09886479377746582},{"id":"https://openalex.org/keywords/composite-material","display_name":"Composite material","score":0.06513041257858276}],"concepts":[{"id":"https://openalex.org/C2777814067","wikidata":"https://www.wikidata.org/wiki/Q1752317","display_name":"Tandem","level":2,"score":0.767358660697937},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.7374235987663269},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5670878887176514},{"id":"https://openalex.org/C2777726330","wikidata":"https://www.wikidata.org/wiki/Q320607","display_name":"Oligosaccharide","level":2,"score":0.5152575969696045},{"id":"https://openalex.org/C40325409","wikidata":"https://www.wikidata.org/wiki/Q2360668","display_name":"Mass spectrum","level":3,"score":0.49563729763031006},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3783368468284607},{"id":"https://openalex.org/C32909587","wikidata":"https://www.wikidata.org/wiki/Q11369","display_name":"Molecule","level":2,"score":0.22184798121452332},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.2086397409439087},{"id":"https://openalex.org/C162356407","wikidata":"https://www.wikidata.org/wiki/Q180809","display_name":"Mass spectrometry","level":2,"score":0.18624809384346008},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.14477872848510742},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.13278773427009583},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.09886479377746582},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.06513041257858276},{"id":"https://openalex.org/C55352822","wikidata":"https://www.wikidata.org/wiki/Q5558978","display_name":"Gibbs isotherm","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D009844","descriptor_name":"Oligosaccharides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009844","descriptor_name":"Oligosaccharides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009844","descriptor_name":"Oligosaccharides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011134","descriptor_name":"Polysaccharides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011134","descriptor_name":"Polysaccharides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011134","descriptor_name":"Polysaccharides","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":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btab412","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btab412","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:34050747","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34050747","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:HAL:hal-03318566v1","is_oa":false,"landing_page_url":"https://hal.inrae.fr/hal-03318566","pdf_url":null,"source":{"id":"https://openalex.org/S4406922466","display_name":"SPIRE - Sciences Po Institutional REpository","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2021, 37 (22), pp.4261-4262. ⟨10.1093/bioinformatics/btab412⟩","raw_type":"Journal articles"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.6000000238418579}],"awards":[],"funders":[{"id":"https://openalex.org/F4320331560","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":11,"referenced_works":["https://openalex.org/W1975147762","https://openalex.org/W1992066825","https://openalex.org/W2005368996","https://openalex.org/W2015986985","https://openalex.org/W2591586569","https://openalex.org/W2743571801","https://openalex.org/W2923247156","https://openalex.org/W2953110573","https://openalex.org/W3091233500","https://openalex.org/W3100950062","https://openalex.org/W6643860709"],"related_works":["https://openalex.org/W4387497383","https://openalex.org/W2948807893","https://openalex.org/W2778153218","https://openalex.org/W2748952813","https://openalex.org/W1531601525","https://openalex.org/W4391375266","https://openalex.org/W2078814861","https://openalex.org/W2527526854","https://openalex.org/W1976181487","https://openalex.org/W1986764834"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}