{"id":"https://openalex.org/W2100491586","doi":"https://doi.org/10.1093/bib/bbs045","title":"Automated glycopeptide analysis--review of current state and future directions","display_name":"Automated glycopeptide analysis--review of current state and future directions","publication_year":2012,"publication_date":"2012-07-27","ids":{"openalex":"https://openalex.org/W2100491586","doi":"https://doi.org/10.1093/bib/bbs045","mag":"2100491586","pmid":"https://pubmed.ncbi.nlm.nih.gov/22843980"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbs045","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbs045","pdf_url":"https://academic.oup.com/bib/article-pdf/14/3/361/710765/bbs045.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/14/3/361/710765/bbs045.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5049140800","display_name":"David C. Dallas","orcid":"https://orcid.org/0000-0002-9696-0967"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"D. C. Dallas","raw_affiliation_strings":["University of California, Davis, Davis, CA 95616, USA","University of California Davis, Davis, CA 95616, USA,"],"affiliations":[{"raw_affiliation_string":"University of California, Davis, Davis, CA 95616, USA","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"University of California Davis, Davis, CA 95616, USA,","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016571082","display_name":"William Martin","orcid":"https://orcid.org/0000-0003-1478-6449"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"W. F. Martin","raw_affiliation_strings":["University of California at Davis"],"affiliations":[{"raw_affiliation_string":"University of California at Davis","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005169373","display_name":"Serenus Hua","orcid":null},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. Hua","raw_affiliation_strings":["University of California at Davis"],"affiliations":[{"raw_affiliation_string":"University of California at Davis","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5073159054","display_name":"J. Bruce German","orcid":"https://orcid.org/0000-0002-4856-7693"},"institutions":[{"id":"https://openalex.org/I4210125155","display_name":"Institute of Food Science & Technology","ror":"https://ror.org/036d5sh68","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I4210125155"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"J. B. German","raw_affiliation_strings":["Food Science & Technology"],"affiliations":[{"raw_affiliation_string":"Food Science & Technology","institution_ids":["https://openalex.org/I4210125155"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5049140800"],"corresponding_institution_ids":["https://openalex.org/I84218800"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":3.7577,"has_fulltext":false,"cited_by_count":73,"citation_normalized_percentile":{"value":0.94147231,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"14","issue":"3","first_page":"361","last_page":"374"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10602","display_name":"Glycosylation and Glycoproteins Research","score":1.0,"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":1.0,"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/T10835","display_name":"Carbohydrate Chemistry and Synthesis","score":0.9988999962806702,"subfield":{"id":"https://openalex.org/subfields/1605","display_name":"Organic Chemistry"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9937000274658203,"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/glycoproteomics","display_name":"Glycoproteomics","score":0.9513471722602844},{"id":"https://openalex.org/keywords/glycopeptide","display_name":"Glycopeptide","score":0.7748104333877563},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6296700835227966},{"id":"https://openalex.org/keywords/glycan","display_name":"Glycan","score":0.5045021772384644},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5021607875823975},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.48754116892814636},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.4596706032752991},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.36595797538757324},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3057684004306793},{"id":"https://openalex.org/keywords/glycoprotein","display_name":"Glycoprotein","score":0.25250014662742615},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23502421379089355},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.14658787846565247},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.08504030108451843}],"concepts":[{"id":"https://openalex.org/C156534840","wikidata":"https://www.wikidata.org/wiki/Q5572649","display_name":"Glycoproteomics","level":4,"score":0.9513471722602844},{"id":"https://openalex.org/C137610392","wikidata":"https://www.wikidata.org/wiki/Q2425020","display_name":"Glycopeptide","level":3,"score":0.7748104333877563},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6296700835227966},{"id":"https://openalex.org/C206212055","wikidata":"https://www.wikidata.org/wiki/Q2553138","display_name":"Glycan","level":3,"score":0.5045021772384644},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5021607875823975},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48754116892814636},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.4596706032752991},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.36595797538757324},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3057684004306793},{"id":"https://openalex.org/C108625454","wikidata":"https://www.wikidata.org/wiki/Q187126","display_name":"Glycoprotein","level":2,"score":0.25250014662742615},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23502421379089355},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.14658787846565247},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.08504030108451843},{"id":"https://openalex.org/C501593827","wikidata":"https://www.wikidata.org/wiki/Q12187","display_name":"Antibiotics","level":2,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001331","descriptor_name":"Automation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006020","descriptor_name":"Glycopeptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D006020","descriptor_name":"Glycopeptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D006020","descriptor_name":"Glycopeptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D006020","descriptor_name":"Glycopeptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006020","descriptor_name":"Glycopeptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D006020","descriptor_name":"Glycopeptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbs045","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbs045","pdf_url":"https://academic.oup.com/bib/article-pdf/14/3/361/710765/bbs045.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22843980","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22843980","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:2982074","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3659302","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbs045","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbs045","pdf_url":"https://academic.oup.com/bib/article-pdf/14/3/361/710765/bbs045.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2100491586.pdf","grobid_xml":"https://content.openalex.org/works/W2100491586.grobid-xml"},"referenced_works_count":64,"referenced_works":["https://openalex.org/W1542243734","https://openalex.org/W1584038271","https://openalex.org/W1964850706","https://openalex.org/W1966622884","https://openalex.org/W1969869303","https://openalex.org/W1976388576","https://openalex.org/W1976484683","https://openalex.org/W1979087564","https://openalex.org/W1981593008","https://openalex.org/W1989015529","https://openalex.org/W1989728131","https://openalex.org/W1992886596","https://openalex.org/W2003856336","https://openalex.org/W2004125187","https://openalex.org/W2006745386","https://openalex.org/W2013246664","https://openalex.org/W2013916945","https://openalex.org/W2014436828","https://openalex.org/W2019114457","https://openalex.org/W2019583094","https://openalex.org/W2022338284","https://openalex.org/W2022584010","https://openalex.org/W2022832661","https://openalex.org/W2026465178","https://openalex.org/W2031119708","https://openalex.org/W2034456933","https://openalex.org/W2036946587","https://openalex.org/W2043732316","https://openalex.org/W2053799156","https://openalex.org/W2055112342","https://openalex.org/W2060793564","https://openalex.org/W2062302478","https://openalex.org/W2063432830","https://openalex.org/W2065331767","https://openalex.org/W2065670631","https://openalex.org/W2068432194","https://openalex.org/W2069002537","https://openalex.org/W2070442681","https://openalex.org/W2071276534","https://openalex.org/W2072639296","https://openalex.org/W2075672935","https://openalex.org/W2079419946","https://openalex.org/W2086479888","https://openalex.org/W2092504289","https://openalex.org/W2094914919","https://openalex.org/W2100196601","https://openalex.org/W2108672544","https://openalex.org/W2111007726","https://openalex.org/W2112063245","https://openalex.org/W2112537046","https://openalex.org/W2130706354","https://openalex.org/W2137297099","https://openalex.org/W2138956724","https://openalex.org/W2145574694","https://openalex.org/W2150675831","https://openalex.org/W2152824935","https://openalex.org/W2153391615","https://openalex.org/W2154115123","https://openalex.org/W2157919383","https://openalex.org/W2159825863","https://openalex.org/W2162510332","https://openalex.org/W2163905932","https://openalex.org/W2338266679","https://openalex.org/W2950797103"],"related_works":["https://openalex.org/W3092562145","https://openalex.org/W3217509830","https://openalex.org/W2569400431","https://openalex.org/W2896810615","https://openalex.org/W2973261207","https://openalex.org/W2794039003","https://openalex.org/W2363933845","https://openalex.org/W4390810909","https://openalex.org/W2557180893","https://openalex.org/W2764162559"],"abstract_inverted_index":{"Glycosylation":[0],"of":[1,18,39,45,54,59,93,107,173,178,187,228],"proteins":[2],"is":[3,16,27,136],"involved":[4],"in":[5,47,147,175,208,217],"immune":[6],"defense,":[7],"cell-cell":[8],"adhesion,":[9],"cellular":[10],"recognition":[11],"and":[12,15,22,34,63,73,114,124,149,156,167,191,201,206,214,230,235],"pathogen":[13],"binding":[14],"one":[17],"the":[19,42,52,90,104,179,185],"most":[20],"common":[21],"complex":[23,68],"post-translational":[24],"modifications.":[25],"Science":[26],"still":[28],"struggling":[29],"to":[30,36,51,112,118],"assign":[31],"detailed":[32],"mechanisms":[33],"functions":[35],"this":[37],"form":[38],"conjugation.":[40],"Even":[41],"structural":[43,176],"analysis":[44],"glycoproteins-glycoproteomics-remains":[46],"its":[48],"infancy":[49],"due":[50],"scarcity":[53],"high-throughput":[55,213],"analytical":[56,189],"platforms":[57,66],"capable":[58,172],"determining":[60],"glycopeptide":[61,108,152,203],"composition":[62,72],"structure,":[64],"especially":[65],"for":[67,99,154,198],"biological":[69,161,209],"mixtures.":[70],"Glycopeptide":[71],"structure":[74],"can":[75,143,220],"be":[76,119],"determined":[77],"with":[78,86],"high":[79],"mass-accuracy":[80],"mass":[81,222],"spectrometry,":[82],"particularly":[83],"when":[84],"combined":[85],"chromatographic":[87],"separation,":[88],"but":[89],"sheer":[91],"volume":[92],"generated":[94],"data":[95,146,216,224],"necessitates":[96],"computational":[97],"software":[98,123,141,190],"interpretation.":[100],"This":[101],"review":[102],"discusses":[103],"current":[105],"state":[106],"assignment":[109],"software-advances":[110],"made":[111],"date":[113],"issues":[115],"that":[116,142],"remain":[117],"addressed.":[120],"The":[121],"various":[122],"algorithms":[125,192],"developed":[126],"so":[127],"far":[128],"provide":[129],"important":[130],"insights":[131],"into":[132],"glycoproteomics.":[133],"However,":[134],"there":[135],"currently":[137],"no":[138],"freely":[139,236],"available":[140],"analyze":[144],"spectral":[145,223],"batch":[148],"unambiguously":[150],"determine":[151],"compositions":[153],"N-":[155,200],"O-linked":[157,202],"glycopeptides":[158],"from":[159,225],"relevant":[160],"sources":[162,229],"such":[163],"as":[164],"human":[165],"milk":[166],"serum.":[168],"Few":[169],"programs":[170],"are":[171,193,212,232],"aiding":[174],"determination":[177],"glycan":[180],"component.":[181],"To":[182],"significantly":[183],"advance":[184],"field":[186],"glycoproteomics,":[188],"required":[194],"that:":[195],"(i)":[196],"solve":[197],"both":[199],"compositions,":[204],"structures":[205],"glycosites":[207],"mixtures;":[210],"(ii)":[211],"process":[215],"batches;":[218],"(iii)":[219],"interpret":[221],"a":[226],"variety":[227],"(iv)":[231],"open":[233],"source":[234],"available.":[237]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":6},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":10},{"year":2016,"cited_by_count":14},{"year":2015,"cited_by_count":10},{"year":2014,"cited_by_count":10},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
