{"id":"https://openalex.org/W2073876876","doi":"https://doi.org/10.1021/acs.jproteome.5b00176","title":"Can \u201cNormal\u201d Protein Expression Ranges Be Estimated with High-Throughput Proteomics?","display_name":"Can \u201cNormal\u201d Protein Expression Ranges Be Estimated with High-Throughput Proteomics?","publication_year":2015,"publication_date":"2015-04-16","ids":{"openalex":"https://openalex.org/W2073876876","doi":"https://doi.org/10.1021/acs.jproteome.5b00176","mag":"2073876876","pmid":"https://pubmed.ncbi.nlm.nih.gov/25877823"},"language":"en","primary_location":{"id":"doi:10.1021/acs.jproteome.5b00176","doi":"https://doi.org/10.1021/acs.jproteome.5b00176","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jproteome.5b00176","pdf_url":null,"source":{"id":"https://openalex.org/S74367812","display_name":"Journal of Proteome Research","issn_l":"1535-3893","issn":["1535-3893","1535-3907"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-d","doyens","jufo-1","ki-jl-1","medline","norway-2","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Proteome Research","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","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/A5108222756","display_name":"Roger Higdon","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I1295499534","display_name":"Seattle Children's Hospital","ror":"https://ror.org/01njes783","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295499534"]},{"id":"https://openalex.org/I4405262941","display_name":"Seattle Children's Research Institute","ror":"https://ror.org/00cz0md82","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295499534","https://openalex.org/I4405262941"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Roger Higdon","raw_affiliation_strings":["Bioinformatics and High-Throughput Analysis Laboratory, Seattle Children\u2019s Research Institute, Seattle, Washington 98101, United States","CDO Analytics, Seattle Children\u2019s Hospital, Seattle, Washington 98101, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics and High-Throughput Analysis Laboratory, Seattle Children\u2019s Research Institute, Seattle, Washington 98101, United States","institution_ids":["https://openalex.org/I4405262941"]},{"raw_affiliation_string":"CDO Analytics, Seattle Children\u2019s Hospital, Seattle, Washington 98101, United States","institution_ids":["https://openalex.org/I1295499534"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5087861388","display_name":"Eugene Kolker","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I12912129","display_name":"Northeastern University","ror":"https://ror.org/04t5xt781","country_code":"US","type":"education","lineage":["https://openalex.org/I12912129"]},{"id":"https://openalex.org/I1295499534","display_name":"Seattle Children's Hospital","ror":"https://ror.org/01njes783","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295499534"]},{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]},{"id":"https://openalex.org/I4405262941","display_name":"Seattle Children's Research Institute","ror":"https://ror.org/00cz0md82","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1295499534","https://openalex.org/I4405262941"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Eugene Kolker","raw_affiliation_strings":["Bioinformatics and High-Throughput Analysis Laboratory, Seattle Children\u2019s Research Institute, Seattle, Washington 98101, United States","CDO Analytics, Seattle Children\u2019s Hospital, Seattle, Washington 98101, United States","Department of Chemistry and Chemical Biology, Northeastern University, Boston, Massachusetts 02115, United States","Departments of Biomedical Informatics and Medical Education and Pediatrics, University of Washington, Seattle, Washington 98195, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics and High-Throughput Analysis Laboratory, Seattle Children\u2019s Research Institute, Seattle, Washington 98101, United States","institution_ids":["https://openalex.org/I4405262941"]},{"raw_affiliation_string":"CDO Analytics, Seattle Children\u2019s Hospital, Seattle, Washington 98101, United States","institution_ids":["https://openalex.org/I1295499534"]},{"raw_affiliation_string":"Department of Chemistry and Chemical Biology, Northeastern University, Boston, Massachusetts 02115, United States","institution_ids":["https://openalex.org/I12912129"]},{"raw_affiliation_string":"Departments of Biomedical Informatics and Medical Education and Pediatrics, University of Washington, Seattle, Washington 98195, United States","institution_ids":["https://openalex.org/I201448701"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5087861388"],"corresponding_institution_ids":["https://openalex.org/I12912129","https://openalex.org/I1295499534","https://openalex.org/I201448701","https://openalex.org/I4405262941"],"apc_list":{"value":4500,"currency":"USD","value_usd":4500},"apc_paid":null,"fwci":0.6401,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.59412319,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":88,"max":97},"biblio":{"volume":"14","issue":"6","first_page":"2398","last_page":"2407"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9940999746322632,"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":0.9940999746322632,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0017999999690800905,"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/T12867","display_name":"Advanced Biosensing Techniques and Applications","score":0.0017000000225380063,"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/human-proteome","display_name":"human proteome","score":0.6460000276565552},{"id":"https://openalex.org/keywords/technical-variation","display_name":"technical variability","score":0.7760000228881836},{"id":"https://openalex.org/keywords/biological-variation","display_name":"biological variation","score":0.9980000257492065},{"id":"https://openalex.org/keywords/coefficient-of-variation","display_name":"coefficient of variation","score":0.921999990940094},{"id":"https://openalex.org/keywords/housekeeping-proteins","display_name":"housekeeping proteins","score":0.746999979019165},{"id":"https://openalex.org/keywords/normalization","display_name":"normalization","score":0.3709999918937683},{"id":"https://openalex.org/keywords/high-throughput-proteomics","display_name":"high-throughput proteomics","score":0.7260000109672546},{"id":"https://openalex.org/keywords/human-proteome-project","display_name":"Human Proteome Project","score":0.621999979019165}],"concepts":[{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.8334821462631226},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.6448768377304077},{"id":"https://openalex.org/C80311884","wikidata":"https://www.wikidata.org/wiki/Q7268939","display_name":"Quantitative proteomics","level":4,"score":0.6207922101020813},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5781781673431396},{"id":"https://openalex.org/C6856738","wikidata":"https://www.wikidata.org/wiki/Q331672","display_name":"Protein expression","level":3,"score":0.5440314412117004},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5103544592857361},{"id":"https://openalex.org/C158163496","wikidata":"https://www.wikidata.org/wiki/Q5937310","display_name":"Human Protein Atlas","level":4,"score":0.421671599149704},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3558673858642578},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.23130887746810913},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21277767419815063}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012016","descriptor_name":"Reference Values","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","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":"D057166","descriptor_name":"High-Throughput Screening Assays","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1021/acs.jproteome.5b00176","doi":"https://doi.org/10.1021/acs.jproteome.5b00176","is_oa":false,"landing_page_url":"https://doi.org/10.1021/acs.jproteome.5b00176","pdf_url":null,"source":{"id":"https://openalex.org/S74367812","display_name":"Journal of Proteome Research","issn_l":"1535-3893","issn":["1535-3893","1535-3907"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-d","doyens","jufo-1","ki-jl-1","medline","norway-2","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Proteome Research","raw_type":"journal-article"},{"id":"pmid:25877823","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25877823","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,"listed_in":[],"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 proteome research","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.4000000059604645,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G4890040393","display_name":null,"funder_award_id":"DBI-0969929","funder_id":"https://openalex.org/F4320337398","funder_display_name":"Division of Biological Infrastructure"}],"funders":[{"id":"https://openalex.org/F4320311684","display_name":"Seattle Children's Research Institute","ror":"https://ror.org/01njes783"},{"id":"https://openalex.org/F4320337398","display_name":"Division of Biological Infrastructure","ror":"https://ror.org/04qn9mx93"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":57,"referenced_works":["https://openalex.org/W1566054158","https://openalex.org/W1963740134","https://openalex.org/W1968399600","https://openalex.org/W1968436111","https://openalex.org/W1980032585","https://openalex.org/W1982167563","https://openalex.org/W2005838473","https://openalex.org/W2010637767","https://openalex.org/W2014328430","https://openalex.org/W2022406334","https://openalex.org/W2022636167","https://openalex.org/W2022873228","https://openalex.org/W2023096047","https://openalex.org/W2025891673","https://openalex.org/W2026194398","https://openalex.org/W2028567538","https://openalex.org/W2031095666","https://openalex.org/W2032251362","https://openalex.org/W2035575075","https://openalex.org/W2040132375","https://openalex.org/W2046380004","https://openalex.org/W2051349181","https://openalex.org/W2056499061","https://openalex.org/W2069860553","https://openalex.org/W2072099326","https://openalex.org/W2073109785","https://openalex.org/W2074956188","https://openalex.org/W2079859830","https://openalex.org/W2081098333","https://openalex.org/W2081465448","https://openalex.org/W2089960919","https://openalex.org/W2094953050","https://openalex.org/W2096435507","https://openalex.org/W2110136492","https://openalex.org/W2118001361","https://openalex.org/W2118258530","https://openalex.org/W2118423420","https://openalex.org/W2120295238","https://openalex.org/W2120777670","https://openalex.org/W2123803128","https://openalex.org/W2127068970","https://openalex.org/W2128551987","https://openalex.org/W2135056923","https://openalex.org/W2135598172","https://openalex.org/W2138289111","https://openalex.org/W2141868008","https://openalex.org/W2142032598","https://openalex.org/W2143023112","https://openalex.org/W2143965359","https://openalex.org/W2148490163","https://openalex.org/W2152687832","https://openalex.org/W2164683872","https://openalex.org/W2167728354","https://openalex.org/W2324042516","https://openalex.org/W2333611168","https://openalex.org/W4212920271","https://openalex.org/W4243609982"],"related_works":["https://openalex.org/W4243066531","https://openalex.org/W1969536203","https://openalex.org/W2082265644","https://openalex.org/W2032251362","https://openalex.org/W6906714564","https://openalex.org/W4404627873","https://openalex.org/W2982328611","https://openalex.org/W2052866387","https://openalex.org/W2051349181","https://openalex.org/W1978702876"],"abstract_inverted_index":{"Although":[0],"biological":[1,55],"science":[2],"discovery":[3],"often":[4],"involves":[5],"comparing":[6],"conditions":[7],"to":[8,36,51,63,83,99,129,174,223],"a":[9,179,238],"normal":[10,42,69,195,221,225,242],"state,":[11],"in":[12,25,57,202],"proteomics":[13,40,248],"little":[14],"is":[15],"actually":[16],"known":[17],"about":[18],"normal.":[19],"Two":[20],"Human":[21],"Proteome":[22],"studies":[23,50],"featured":[24],"Nature":[26],"offer":[27],"new":[28],"insights":[29],"into":[30],"protein":[31,43,58,75,93,196,226],"expression":[32,59,65,76,94,203],"and":[33,54,60,163,184,233,245],"an":[34,212],"opportunity":[35],"assess":[37],"how":[38],"high-throughput":[39],"measures":[41],"ranges.":[44],"We":[45,157],"use":[46],"data":[47,66],"from":[48,68,97],"these":[49],"estimate":[52,224],"technical":[53,108],"variability":[56,112,173,201],"compare":[61],"them":[62],"other":[64],"sets":[67],"tissue.":[70],"Results":[71],"show":[72],"that":[73,165,214],"measured":[74],"across":[77,101,168],"same-tissue":[78],"replicates":[79,219],"vary":[80],"by":[81,113,126,198],"\u00b14-":[82],"10-fold":[84],"for":[85,92,107,149,182,228,241],"most":[86],"proteins.":[87],"Coefficients":[88],"of":[89,220,231,247],"variation":[90,109],"(CV)":[91],"measurements":[95,204],"range":[96],"62%":[98],"117%":[100],"different":[102],"tissue":[103],"experiments;":[104],"however,":[105],"adjusting":[106],"reduced":[110,125],"this":[111],"as":[114,116,140,178],"much":[115],"50%.":[117],"In":[118],"addition,":[119],"the":[120,141,190,200],"CV":[121,142],"could":[122],"also":[123,158],"be":[124,237],"limiting":[127],"comparisons":[128,246],"proteins":[130,150,162,232],"with":[131,151,171,218],"at":[132],"least":[133],"3":[134],"or":[135,153],"more":[136],"unique":[137],"peptide":[138,155],"identifications":[139],"was":[143],"on":[144],"average":[145],"33%":[146],"lower":[147],"than":[148],"2":[152],"fewer":[154],"identifications.":[156],"selected":[159],"13":[160],"housekeeping":[161],"genes":[164],"were":[166],"expressed":[167],"all":[169],"tissues":[170,222],"low":[172],"determine":[175],"their":[176],"utility":[177],"reference":[180],"set":[181],"normalization":[183],"comparative":[185],"purposes.":[186],"These":[187],"results":[188],"present":[189],"first":[191],"step":[192],"toward":[193],"estimating":[194],"ranges":[197,227],"determining":[199],"through":[205],"combining":[206],"publicly":[207],"available":[208],"data.":[209],"They":[210],"support":[211],"approach":[213],"combines":[215],"standard":[216],"protocols":[217],"large":[229],"numbers":[230],"tissues.":[234],"This":[235],"would":[236],"tremendous":[239],"resource":[240],"cellular":[243],"physiology":[244],"studies.":[249]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}
