{"id":"https://openalex.org/W2892186999","doi":"https://doi.org/10.1093/bioinformatics/bty590","title":"Liquid-chromatography retention order prediction for metabolite identification","display_name":"Liquid-chromatography retention order prediction for metabolite identification","publication_year":2018,"publication_date":"2018-07-10","ids":{"openalex":"https://openalex.org/W2892186999","doi":"https://doi.org/10.1093/bioinformatics/bty590","mag":"2892186999","pmid":"https://pubmed.ncbi.nlm.nih.gov/30423079"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty590","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty590","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i875/25702364/bty590.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":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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i875/25702364/bty590.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057710320","display_name":"Eric Bach","orcid":"https://orcid.org/0000-0001-6200-5462"},"institutions":[{"id":"https://openalex.org/I32943570","display_name":"Helsinki Institute for Information Technology","ror":"https://ror.org/05kph4940","country_code":"FI","type":"facility","lineage":["https://openalex.org/I133731052","https://openalex.org/I32943570","https://openalex.org/I9927081"]},{"id":"https://openalex.org/I9927081","display_name":"Aalto University","ror":"https://ror.org/020hwjq30","country_code":"FI","type":"education","lineage":["https://openalex.org/I9927081"]}],"countries":["FI"],"is_corresponding":true,"raw_author_name":"Eric Bach","raw_affiliation_strings":["Department of Computer Science, Helsinki Institute for Information Technology HIIT, Aalto University, Espoo, Finland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Helsinki Institute for Information Technology HIIT, Aalto University, Espoo, Finland","institution_ids":["https://openalex.org/I32943570","https://openalex.org/I9927081"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056529215","display_name":"S\u00e1ndor Szedm\u00e1k","orcid":"https://orcid.org/0000-0003-1469-2215"},"institutions":[{"id":"https://openalex.org/I32943570","display_name":"Helsinki Institute for Information Technology","ror":"https://ror.org/05kph4940","country_code":"FI","type":"facility","lineage":["https://openalex.org/I133731052","https://openalex.org/I32943570","https://openalex.org/I9927081"]},{"id":"https://openalex.org/I9927081","display_name":"Aalto University","ror":"https://ror.org/020hwjq30","country_code":"FI","type":"education","lineage":["https://openalex.org/I9927081"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Sandor Szedmak","raw_affiliation_strings":["Department of Computer Science, Helsinki Institute for Information Technology HIIT, Aalto University, Espoo, Finland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Helsinki Institute for Information Technology HIIT, Aalto University, Espoo, Finland","institution_ids":["https://openalex.org/I32943570","https://openalex.org/I9927081"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008589136","display_name":"C\u00e9line Brouard","orcid":"https://orcid.org/0000-0002-5574-7027"},"institutions":[{"id":"https://openalex.org/I32943570","display_name":"Helsinki Institute for Information Technology","ror":"https://ror.org/05kph4940","country_code":"FI","type":"facility","lineage":["https://openalex.org/I133731052","https://openalex.org/I32943570","https://openalex.org/I9927081"]},{"id":"https://openalex.org/I9927081","display_name":"Aalto University","ror":"https://ror.org/020hwjq30","country_code":"FI","type":"education","lineage":["https://openalex.org/I9927081"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"C\u00e9line Brouard","raw_affiliation_strings":["Department of Computer Science, Helsinki Institute for Information Technology HIIT, Aalto University, Espoo, Finland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Helsinki Institute for Information Technology HIIT, Aalto University, Espoo, Finland","institution_ids":["https://openalex.org/I32943570","https://openalex.org/I9927081"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033025664","display_name":"Sebastian B\u00f6cker","orcid":"https://orcid.org/0000-0002-9304-8091"},"institutions":[{"id":"https://openalex.org/I76198965","display_name":"Friedrich Schiller University Jena","ror":"https://ror.org/05qpz1x62","country_code":"DE","type":"education","lineage":["https://openalex.org/I76198965"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Sebastian B\u00f6cker","raw_affiliation_strings":["Department for Computer Science, Chair for Bioinformatics, Friedrich-Schiller-University, Jena, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department for Computer Science, Chair for Bioinformatics, Friedrich-Schiller-University, Jena, Germany","institution_ids":["https://openalex.org/I76198965"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091883185","display_name":"Juho Rousu","orcid":"https://orcid.org/0000-0002-0705-4314"},"institutions":[{"id":"https://openalex.org/I32943570","display_name":"Helsinki Institute for Information Technology","ror":"https://ror.org/05kph4940","country_code":"FI","type":"facility","lineage":["https://openalex.org/I133731052","https://openalex.org/I32943570","https://openalex.org/I9927081"]},{"id":"https://openalex.org/I9927081","display_name":"Aalto University","ror":"https://ror.org/020hwjq30","country_code":"FI","type":"education","lineage":["https://openalex.org/I9927081"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Juho Rousu","raw_affiliation_strings":["Department of Computer Science, Helsinki Institute for Information Technology HIIT, Aalto University, Espoo, Finland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Helsinki Institute for Information Technology HIIT, Aalto University, Espoo, Finland","institution_ids":["https://openalex.org/I32943570","https://openalex.org/I9927081"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5057710320"],"corresponding_institution_ids":["https://openalex.org/I32943570","https://openalex.org/I9927081"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.4717,"has_fulltext":true,"cited_by_count":70,"citation_normalized_percentile":{"value":0.90434555,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"34","issue":"17","first_page":"i875","last_page":"i883"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.8819000124931335,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.8819000124931335,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.05050000175833702,"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"}},{"id":"https://openalex.org/T10640","display_name":"Spectroscopy and Chemometric Analyses","score":0.010900000110268593,"subfield":{"id":"https://openalex.org/subfields/1602","display_name":"Analytical Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/metabolite","display_name":"Metabolite","score":0.674755334854126},{"id":"https://openalex.org/keywords/chromatography","display_name":"Chromatography","score":0.6426589488983154},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6251733303070068},{"id":"https://openalex.org/keywords/retention-time","display_name":"Retention time","score":0.5091513991355896},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.4513031244277954},{"id":"https://openalex.org/keywords/high-performance-liquid-chromatography","display_name":"High-performance liquid chromatography","score":0.4266264736652374},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.38561999797821045},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11619788408279419},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.06885510683059692}],"concepts":[{"id":"https://openalex.org/C2777477808","wikidata":"https://www.wikidata.org/wiki/Q407595","display_name":"Metabolite","level":2,"score":0.674755334854126},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.6426589488983154},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6251733303070068},{"id":"https://openalex.org/C3020018676","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Retention time","level":2,"score":0.5091513991355896},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.4513031244277954},{"id":"https://openalex.org/C179998833","wikidata":"https://www.wikidata.org/wiki/Q381233","display_name":"High-performance liquid chromatography","level":2,"score":0.4266264736652374},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.38561999797821045},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11619788408279419},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.06885510683059692},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/bty590","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty590","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i875/25702364/bty590.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30423079","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30423079","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-02625281v1","is_oa":false,"landing_page_url":"https://hal.inrae.fr/hal-02625281","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"https://academic.oup.com/bioinformatics","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:aaltodoc.aalto.fi:123456789/34109","is_oa":true,"landing_page_url":"https://research.aalto.fi/en/publications/1a963176-110d-46de-ad6c-f070bbbc4324","pdf_url":null,"source":{"id":"https://openalex.org/S4306401662","display_name":"Aaltodoc (Aalto University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I9927081","host_organization_name":"Aalto University","host_organization_lineage":["https://openalex.org/I9927081"],"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":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:prodinra.inra.fr:476214","is_oa":false,"landing_page_url":"http://prodinra.inra.fr/ft/1F565182-34EE-424C-84F3-09BEB3A1839E","pdf_url":null,"source":{"id":"https://openalex.org/S4306400794","display_name":"Prodinra (INRA Bordeaux-Aquitaine)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210088668","host_organization_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","host_organization_lineage":["https://openalex.org/I4210088668"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics 17 (34), i875-i883. (2018)","raw_type":"ARTICLE"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty590","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty590","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i875/25702364/bty590.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G8015120458","display_name":null,"funder_award_id":"310107/MACOME","funder_id":"https://openalex.org/F4320333858","funder_display_name":"Michigan Institute for Data Science, University of Michigan"},{"id":"https://openalex.org/G8988947901","display_name":null,"funder_award_id":"268874","funder_id":"https://openalex.org/F4320321108","funder_display_name":"Academy of Finland"}],"funders":[{"id":"https://openalex.org/F4320321108","display_name":"Academy of Finland","ror":"https://ror.org/05k73zm37"},{"id":"https://openalex.org/F4320333858","display_name":"Michigan Institute for Data Science, University of Michigan","ror":null}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2892186999.pdf","grobid_xml":"https://content.openalex.org/works/W2892186999.grobid-xml"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W1862448690","https://openalex.org/W1964357740","https://openalex.org/W1996078130","https://openalex.org/W2009110937","https://openalex.org/W2019447412","https://openalex.org/W2047221353","https://openalex.org/W2059327215","https://openalex.org/W2067637119","https://openalex.org/W2081301924","https://openalex.org/W2098432798","https://openalex.org/W2101394823","https://openalex.org/W2107183338","https://openalex.org/W2125069590","https://openalex.org/W2125899377","https://openalex.org/W2156909104","https://openalex.org/W2177317049","https://openalex.org/W2179948434","https://openalex.org/W2265106087","https://openalex.org/W2285468881","https://openalex.org/W2289191408","https://openalex.org/W2341171179","https://openalex.org/W2400628046","https://openalex.org/W2440171437","https://openalex.org/W2504691963","https://openalex.org/W2519747900","https://openalex.org/W2603853601","https://openalex.org/W2622236128","https://openalex.org/W2729094614","https://openalex.org/W2741951152","https://openalex.org/W2789212481","https://openalex.org/W2999905431","https://openalex.org/W4211110396","https://openalex.org/W4234945501","https://openalex.org/W6677758222","https://openalex.org/W6746845208"],"related_works":["https://openalex.org/W2521903434","https://openalex.org/W1753739957","https://openalex.org/W2085913165","https://openalex.org/W2011282322","https://openalex.org/W2024044986","https://openalex.org/W2005550771","https://openalex.org/W323632276","https://openalex.org/W2418404479","https://openalex.org/W2078089453","https://openalex.org/W2026391790"],"abstract_inverted_index":{"Motivation:":[0],"Liquid":[1],"Chromatography":[2],"(LC)":[3],"followed":[4],"by":[5],"tandem":[6,31],"Mass":[7],"Spectrometry":[8],"(MS/MS)":[9],"is":[10,44,101,146,192],"one":[11],"of":[12,30,37,74,135,154,189],"the":[13,28,35,71,78,85,133,190],"predominant":[14],"methods":[15,54],"for":[16,55,69,174],"metabolite":[17,49,177],"identification.":[18],"In":[19,40],"recent":[20],"years,":[21],"machine":[22,60,66],"learning":[23,67],"has":[24,90],"started":[25],"to":[26,47,150],"transform":[27],"analysis":[29],"mass":[32],"spectra":[33],"and":[34,126,168,186],"identification":[36],"small":[38],"molecules.":[39],"contrast,":[41],"LC":[42,86,124],"data":[43],"rarely":[45],"used":[46],"improve":[48],"identification,":[50],"despite":[51],"numerous":[52],"published":[53],"retention":[56,72,99,108,119,143,152,158,165],"time":[57,120,159],"prediction":[58,145,167],"using":[59,118],"learning.":[61],"Results:":[62],"We":[63,96],"present":[64],"a":[65,181],"method":[68,89,114,191],"predicting":[70],"order":[73,79,100,144,166],"molecules;":[75],"that":[76,98,142],"is,":[77],"in":[80],"which":[81],"molecules":[82,155],"elute":[83],"from":[84,122,156],"column.":[87],"Our":[88,139],"important":[91],"advantages":[92],"over":[93],"previous":[94],"approaches:":[95],"show":[97],"much":[102],"better":[103],"conserved":[104],"between":[105],"instruments":[106],"than":[107],"time.":[109],"To":[110],"this":[111],"end,":[112],"our":[113],"can":[115,171],"be":[116,172],"trained":[117],"measurements":[121],"different":[123],"systems":[125],"configurations":[127],"without":[128],"tedious":[129],"pre-processing,":[130],"significantly":[131],"increasing":[132],"amount":[134],"available":[136,193],"training":[137],"data.":[138,160],"experiments":[140],"demonstrate":[141,163],"an":[147],"effective":[148],"way":[149],"learn":[151],"behaviour":[153],"heterogeneous":[157],"Finally,":[161],"we":[162],"how":[164],"MS/MS-based":[169],"scores":[170],"combined":[173],"more":[175],"accurate":[176],"identifications":[178],"when":[179],"analyzing":[180],"complete":[182],"LC-MS/MS":[183],"run.":[184],"Availability":[185],"implementation:":[187],"Implementation":[188],"at":[194],"https://version.aalto.fi/gitlab/bache1/retention_order_prediction.git.":[195]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":10},{"year":2022,"cited_by_count":15},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":15},{"year":2019,"cited_by_count":7}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
