{"id":"https://openalex.org/W2001440207","doi":"https://doi.org/10.1142/s0219720014400010","title":"Identification of best indicators of peptide-spectrum match using a permutation resampling approach","display_name":"Identification of best indicators of peptide-spectrum match using a permutation resampling approach","publication_year":2014,"publication_date":"2014-09-18","ids":{"openalex":"https://openalex.org/W2001440207","doi":"https://doi.org/10.1142/s0219720014400010","mag":"2001440207","pmid":"https://pubmed.ncbi.nlm.nih.gov/25362838"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720014400010","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720014400010","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-244598","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101057355","display_name":"Malik Nadeem Akhtar","orcid":null},"institutions":[{"id":"https://openalex.org/I157725225","display_name":"University of Illinois Urbana-Champaign","ror":"https://ror.org/047426m28","country_code":"US","type":"education","lineage":["https://openalex.org/I157725225"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Malik N. Akhtar","raw_affiliation_strings":["Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL, 61801, USA"],"affiliations":[{"raw_affiliation_string":"Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","institution_ids":["https://openalex.org/I157725225"]},{"raw_affiliation_string":"Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL, 61801, USA","institution_ids":["https://openalex.org/I157725225"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001450490","display_name":"Bruce R. Southey","orcid":"https://orcid.org/0000-0002-8959-7709"},"institutions":[{"id":"https://openalex.org/I157725225","display_name":"University of Illinois Urbana-Champaign","ror":"https://ror.org/047426m28","country_code":"US","type":"education","lineage":["https://openalex.org/I157725225"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bruce R. Southey","raw_affiliation_strings":["Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL, 61801, USA"],"affiliations":[{"raw_affiliation_string":"Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","institution_ids":["https://openalex.org/I157725225"]},{"raw_affiliation_string":"Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL, 61801, USA","institution_ids":["https://openalex.org/I157725225"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068745437","display_name":"Per E. Andr\u00e9n","orcid":"https://orcid.org/0000-0002-4062-7743"},"institutions":[{"id":"https://openalex.org/I123387679","display_name":"Uppsala University","ror":"https://ror.org/048a87296","country_code":"SE","type":"education","lineage":["https://openalex.org/I123387679"]}],"countries":["SE"],"is_corresponding":false,"raw_author_name":"Per E. Andr\u00e9n","raw_affiliation_strings":["Department of Pharmaceutical Biosciences, Uppsala University, Uppsala 75124, Sweden"],"affiliations":[{"raw_affiliation_string":"Department of Pharmaceutical Biosciences, Uppsala University, Uppsala 75124, Sweden","institution_ids":["https://openalex.org/I123387679"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006238710","display_name":"Jonathan V. Sweedler","orcid":"https://orcid.org/0000-0003-3107-9922"},"institutions":[{"id":"https://openalex.org/I4210145583","display_name":"Bioengineering Center","ror":"https://ror.org/04f0ydx59","country_code":"RU","type":"facility","lineage":["https://openalex.org/I1313323035","https://openalex.org/I4210145583"]},{"id":"https://openalex.org/I157725225","display_name":"University of Illinois Urbana-Champaign","ror":"https://ror.org/047426m28","country_code":"US","type":"education","lineage":["https://openalex.org/I157725225"]}],"countries":["RU","US"],"is_corresponding":false,"raw_author_name":"Jonathan V. Sweedler","raw_affiliation_strings":["Department of Chemistry, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","Bioengineering"],"affiliations":[{"raw_affiliation_string":"Department of Chemistry, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","institution_ids":["https://openalex.org/I157725225"]},{"raw_affiliation_string":"Bioengineering","institution_ids":["https://openalex.org/I4210145583"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5058590776","display_name":"Sandra L. Rodriguez\u2010Zas","orcid":"https://orcid.org/0000-0003-1122-4758"},"institutions":[{"id":"https://openalex.org/I157725225","display_name":"University of Illinois Urbana-Champaign","ror":"https://ror.org/047426m28","country_code":"US","type":"education","lineage":["https://openalex.org/I157725225"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sandra L. Rodriguez-Zas","raw_affiliation_strings":["Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","Department of Statistics, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","Institute for Genomic Biology, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA"],"affiliations":[{"raw_affiliation_string":"Department of Animal Sciences, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","institution_ids":["https://openalex.org/I157725225"]},{"raw_affiliation_string":"Department of Statistics, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","institution_ids":["https://openalex.org/I157725225"]},{"raw_affiliation_string":"Institute for Genomic Biology, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA","institution_ids":["https://openalex.org/I157725225"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5101057355"],"corresponding_institution_ids":["https://openalex.org/I157725225"],"apc_list":null,"apc_paid":null,"fwci":0.3224,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.56091565,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"12","issue":"05","first_page":"1440001","last_page":"1440001"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9973000288009644,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9970999956130981,"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/resampling","display_name":"Resampling","score":0.9261481761932373},{"id":"https://openalex.org/keywords/permutation","display_name":"Permutation (music)","score":0.7931433320045471},{"id":"https://openalex.org/keywords/matching","display_name":"Matching (statistics)","score":0.5360183119773865},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5014016628265381},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.49933743476867676},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4977433979511261},{"id":"https://openalex.org/keywords/decoy","display_name":"Decoy","score":0.46318909525871277},{"id":"https://openalex.org/keywords/range","display_name":"Range (aeronautics)","score":0.43056607246398926},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.4232547879219055},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3943093717098236},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3410533666610718},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3376743197441101},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.2846076488494873},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.25969693064689636},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10012945532798767}],"concepts":[{"id":"https://openalex.org/C150921843","wikidata":"https://www.wikidata.org/wiki/Q1170431","display_name":"Resampling","level":2,"score":0.9261481761932373},{"id":"https://openalex.org/C21308566","wikidata":"https://www.wikidata.org/wiki/Q7169365","display_name":"Permutation (music)","level":2,"score":0.7931433320045471},{"id":"https://openalex.org/C165064840","wikidata":"https://www.wikidata.org/wiki/Q1321061","display_name":"Matching (statistics)","level":2,"score":0.5360183119773865},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5014016628265381},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.49933743476867676},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4977433979511261},{"id":"https://openalex.org/C2779179475","wikidata":"https://www.wikidata.org/wiki/Q3545649","display_name":"Decoy","level":3,"score":0.46318909525871277},{"id":"https://openalex.org/C204323151","wikidata":"https://www.wikidata.org/wiki/Q905424","display_name":"Range (aeronautics)","level":2,"score":0.43056607246398926},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.4232547879219055},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3943093717098236},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3410533666610718},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3376743197441101},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.2846076488494873},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.25969693064689636},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10012945532798767},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.0},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":"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":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":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","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}],"locations_count":4,"locations":[{"id":"doi:10.1142/s0219720014400010","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720014400010","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:25362838","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25362838","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":"Journal of bioinformatics and computational biology","raw_type":null},{"id":"pmh:oai:DiVA.org:uu-244598","is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-244598","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article in journal"},{"id":"pmh:oai:pubmedcentral.nih.gov:4243829","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4243829","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Bioinform Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:DiVA.org:uu-244598","is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-244598","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article in journal"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":25,"referenced_works":["https://openalex.org/W1966792579","https://openalex.org/W1971215949","https://openalex.org/W1976221811","https://openalex.org/W1981593008","https://openalex.org/W1989770230","https://openalex.org/W1996600592","https://openalex.org/W1999751815","https://openalex.org/W2024668145","https://openalex.org/W2026593185","https://openalex.org/W2031016692","https://openalex.org/W2033340247","https://openalex.org/W2047275456","https://openalex.org/W2077339327","https://openalex.org/W2081740760","https://openalex.org/W2085208668","https://openalex.org/W2089066209","https://openalex.org/W2096057003","https://openalex.org/W2127704287","https://openalex.org/W2130706354","https://openalex.org/W2131381861","https://openalex.org/W2144751786","https://openalex.org/W2148632411","https://openalex.org/W2161062388","https://openalex.org/W2168887220","https://openalex.org/W2772934464"],"related_works":["https://openalex.org/W2021333301","https://openalex.org/W4246719347","https://openalex.org/W2077508419","https://openalex.org/W2006114390","https://openalex.org/W2380800094","https://openalex.org/W2056203905","https://openalex.org/W2055801436","https://openalex.org/W4385400511","https://openalex.org/W2162206208","https://openalex.org/W2023660371"],"abstract_inverted_index":{"Various":[0],"indicators":[1,66,76,165],"of":[2,27,39,62,81,92,152,162,176],"observed-theoretical":[3],"spectrum":[4],"matches":[5,135],"were":[6,30,72,77],"compared":[7,97,145],"and":[8,50,74,85,122,166],"the":[9,24,34,82,90,93,99,104,137,150,153,167],"resulting":[10],"statistical":[11],"significance":[12,42,96],"was":[13,46],"characterized":[14],"using":[15,115,127,142],"permutation":[16,125,144,155,169],"resampling.":[17],"Novel":[18],"decoy":[19,87],"databases":[20,88],"built":[21],"by":[22],"resampling":[23],"terminal":[25],"positions":[26],"peptide":[28,40,94],"sequences":[29],"evaluated":[31],"to":[32,98,146,157],"identify":[33,158],"conditions":[35],"for":[36,173],"accurate":[37,174],"computation":[38],"match":[41,65,95,164],"levels.":[43],"The":[44,79,131,160],"methodology":[45],"tested":[47],"on":[48,110],"real":[49],"manually":[51],"curated":[52],"tandem":[53],"mass":[54],"spectra":[55],"from":[56,67,118],"peptides":[57],"across":[58],"a":[59],"wide":[60],"range":[61],"sizes.":[63],"Spectra":[64],"complementary":[68],"database":[69,105,138],"search":[70,106,139],"programs":[71,107,140],"profiled":[73],"optimal":[75,83],"identified.":[78],"combination":[80,161],"indicator":[84],"permuted":[86],"improved":[89],"calculation":[91],"approaches":[100,148],"currently":[101],"implemented":[102],"in":[103,134],"that":[108],"rely":[109],"distributional":[111],"assumptions.":[112],"Permutation":[113],"tests":[114,126],"p-values":[116],"obtained":[117],"software-dependent":[119],"matching":[120],"scores":[121],"E-values":[123],"outperformed":[124],"all":[128],"other":[129],"indicators.":[130],"higher":[132],"overlap":[133],"between":[136],"when":[141],"end":[143,154,168],"existing":[147],"confirmed":[149],"superiority":[151],"method":[156,170],"peptides.":[159,177],"effective":[163],"is":[171],"recommended":[172],"detection":[175]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1}],"updated_date":"2026-03-10T16:38:18.471706","created_date":"2025-10-10T00:00:00"}
