{"id":"https://openalex.org/W2342565021","doi":"https://doi.org/10.1093/bioinformatics/btw225","title":"Confidence assignment for mass spectrometry based peptide identifications via the extreme value distribution","display_name":"Confidence assignment for mass spectrometry based peptide identifications via the extreme value distribution","publication_year":2016,"publication_date":"2016-04-30","ids":{"openalex":"https://openalex.org/W2342565021","doi":"https://doi.org/10.1093/bioinformatics/btw225","mag":"2342565021","pmid":"https://pubmed.ncbi.nlm.nih.gov/27153659"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btw225","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw225","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/17/2642/24342949/btw225.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/32/17/2642/24342949/btw225.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5080166154","display_name":"Gelio Alves","orcid":"https://orcid.org/0000-0002-1595-1445"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gelio Alves","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080970152","display_name":"Yi\u2010Kuo Yu","orcid":"https://orcid.org/0000-0002-6213-7665"},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yi-Kuo Yu","raw_affiliation_strings":["National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I4210109390","https://openalex.org/I1299303238"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5080970152"],"corresponding_institution_ids":["https://openalex.org/I1299303238","https://openalex.org/I4210109390"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.68,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.71724917,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"32","issue":"17","first_page":"2642","last_page":"2649"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9939000010490417,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9939000010490417,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"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/T10683","display_name":"Mass Spectrometry Techniques and Applications","score":0.0026000000070780516,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.0006000000284984708,"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/computer-science","display_name":"Computer science","score":0.7209000587463379},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.7139355540275574},{"id":"https://openalex.org/keywords/file-transfer-protocol","display_name":"File Transfer Protocol","score":0.5909592509269714},{"id":"https://openalex.org/keywords/confidence-interval","display_name":"Confidence interval","score":0.5143529176712036},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.47433772683143616},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4525177478790283},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.28544217348098755},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13156557083129883},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.08848631381988525}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7209000587463379},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.7139355540275574},{"id":"https://openalex.org/C169485995","wikidata":"https://www.wikidata.org/wiki/Q42283","display_name":"File Transfer Protocol","level":3,"score":0.5909592509269714},{"id":"https://openalex.org/C44249647","wikidata":"https://www.wikidata.org/wiki/Q208498","display_name":"Confidence interval","level":2,"score":0.5143529176712036},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.47433772683143616},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4525177478790283},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.28544217348098755},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13156557083129883},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.08848631381988525},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.0},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.0}],"mesh":[{"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","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":true},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","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":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}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btw225","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw225","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/17/2642/24342949/btw225.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:27153659","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27153659","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:europepmc.org:5027267","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5939896","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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:32/17/2642","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/32/17/2642","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btw225","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btw225","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/32/17/2642/24342949/btw225.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":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":37,"referenced_works":["https://openalex.org/W1764704250","https://openalex.org/W1964068488","https://openalex.org/W1972631150","https://openalex.org/W1988670311","https://openalex.org/W1996692875","https://openalex.org/W2015223692","https://openalex.org/W2023655541","https://openalex.org/W2026465178","https://openalex.org/W2031016692","https://openalex.org/W2032443342","https://openalex.org/W2036351085","https://openalex.org/W2038581432","https://openalex.org/W2043828494","https://openalex.org/W2047275456","https://openalex.org/W2072340282","https://openalex.org/W2082006641","https://openalex.org/W2085767578","https://openalex.org/W2096057003","https://openalex.org/W2099275584","https://openalex.org/W2099314206","https://openalex.org/W2107115446","https://openalex.org/W2110065044","https://openalex.org/W2116063068","https://openalex.org/W2124606291","https://openalex.org/W2125617877","https://openalex.org/W2125656519","https://openalex.org/W2135405321","https://openalex.org/W2149151507","https://openalex.org/W2155480346","https://openalex.org/W2158520060","https://openalex.org/W2312194337","https://openalex.org/W2748571654","https://openalex.org/W4205598956","https://openalex.org/W4236154753","https://openalex.org/W4240455808","https://openalex.org/W6638011547","https://openalex.org/W6682915077"],"related_works":["https://openalex.org/W2349516242","https://openalex.org/W2378353542","https://openalex.org/W2274312645","https://openalex.org/W2358003099","https://openalex.org/W2479761186","https://openalex.org/W2373243130","https://openalex.org/W3088189910","https://openalex.org/W2389928460","https://openalex.org/W2351853150","https://openalex.org/W2386192326"],"abstract_inverted_index":{"MOTIVATION:":[0],"There":[1],"is":[2,25,172],"a":[3,169],"growing":[4],"trend":[5],"for":[6,99,120,136,142,153,174],"biomedical":[7],"researchers":[8],"to":[9,53,110,124,146],"extract":[10],"evidence":[11],"and":[12,38,78,94,114,131],"draw":[13],"conclusions":[14],"from":[15],"mass":[16],"spectrometry":[17],"based":[18,63],"proteomics":[19],"experiments,":[20],"the":[21,69,90,96,138,151],"cornerstone":[22],"of":[23,30,56],"which":[24],"peptide":[26,31,43,143],"identification.":[27],"Inaccurate":[28],"assignments":[29],"identification":[32,44,144],"confidence":[33],"thus":[34],"may":[35],"have":[36,50,129],"far-reaching":[37],"adverse":[39],"consequences.":[40],"Although":[41],"some":[42],"methods":[45],"report":[46],"accurate":[47,75,111],"statistics,":[48],"they":[49],"been":[51],"limited":[52],"certain":[54],"types":[55],"scoring":[57,70,121,148],"function.":[58],"The":[59,161],"extreme":[60,139],"value":[61,140],"statistics":[62,119,141],"method,":[64],"while":[65],"more":[66],"general":[67],"in":[68,82,165],"functions":[71,122],"it":[72,105,115],"allows,":[73],"demands":[74],"parameter":[76,91],"estimates":[77],"requires,":[79],"at":[80,176,186],"least":[81],"its":[83],"original":[84],"design,":[85],"excessive":[86],"computational":[87,97],"resources.":[88],"Improving":[89],"estimate":[92],"accuracy":[93],"reducing":[95],"cost":[98],"this":[100],"method":[101],"has":[102],"two":[103],"advantages:":[104],"provides":[106],"another":[107],"feasible":[108],"route":[109],"significance":[112],"assessment,":[113],"could":[116],"provide":[117],"reliable":[118],"yet":[123],"be":[125],"developed.":[126],"RESULTS:":[127],"We":[128],"formulated":[130],"implemented":[132,164],"an":[133],"efficient":[134],"algorithm":[135],"calculating":[137],"applicable":[145],"various":[147],"functions,":[149],"bypassing":[150],"need":[152],"searching":[154],"large":[155],"random":[156],"databases.":[157],"AVAILABILITY":[158],"AND":[159],"IMPLEMENTATION:":[160],"source":[162],"code,":[163],"C":[166],"++":[167],"on":[168],"linux":[170],"system,":[171],"available":[173,185],"download":[175],"ftp://ftp.ncbi.nlm.nih.gov/pub/qmbp/qmbp_ms/RAId/RAId_Linux_64Bit":[177],"CONTACT:":[178],"yyu@ncbi.nlm.nih.gov":[179],"SUPPLEMENTARY":[180],"INFORMATION:":[181],"Supplementary":[182],"data":[183],"are":[184],"Bioinformatics":[187],"online.":[188]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
