{"id":"https://openalex.org/W2135233310","doi":"https://doi.org/10.1093/bioinformatics/btu200","title":"aLFQ: an R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data","display_name":"aLFQ: an R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data","publication_year":2014,"publication_date":"2014-04-20","ids":{"openalex":"https://openalex.org/W2135233310","doi":"https://doi.org/10.1093/bioinformatics/btu200","mag":"2135233310","pmid":"https://pubmed.ncbi.nlm.nih.gov/24753486"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu200","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu200","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/17/2511/48927082/bioinformatics_30_17_2511.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/30/17/2511/48927082/bioinformatics_30_17_2511.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021900740","display_name":"George Rosenberger","orcid":"https://orcid.org/0000-0002-1655-6789"},"institutions":[{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"George Rosenberger","raw_affiliation_strings":["1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I202697423","https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090320822","display_name":"Christina Ludwig","orcid":"https://orcid.org/0000-0002-6131-7322"},"institutions":[{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Christina Ludwig","raw_affiliation_strings":["1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I202697423","https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058994478","display_name":"Hannes R\u00f6st","orcid":"https://orcid.org/0000-0003-0990-7488"},"institutions":[{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Hannes L. R\u00f6st","raw_affiliation_strings":["1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I202697423","https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053361384","display_name":"Ruedi Aebersold","orcid":"https://orcid.org/0000-0002-9576-3267"},"institutions":[{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Ruedi Aebersold","raw_affiliation_strings":["1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I202697423","https://openalex.org/I35440088"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089221737","display_name":"Lars Malmstr\u00f6m","orcid":"https://orcid.org/0000-0001-9885-9312"},"institutions":[{"id":"https://openalex.org/I202697423","display_name":"University of Zurich","ror":"https://ror.org/02crff812","country_code":"CH","type":"education","lineage":["https://openalex.org/I202697423"]},{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":true,"raw_author_name":"Lars Malmstr\u00f6m","raw_affiliation_strings":["1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 \u00a01Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland, 2PhD Program in Systems Biology, University of Zurich and ETH Zurich, Zurich, Switzerland and 3Faculty of Science, University of Zurich, Zurich, Switzerland","institution_ids":["https://openalex.org/I202697423","https://openalex.org/I35440088"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5089221737"],"corresponding_institution_ids":["https://openalex.org/I202697423","https://openalex.org/I35440088"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":4.0436,"has_fulltext":true,"cited_by_count":68,"citation_normalized_percentile":{"value":0.95252116,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"30","issue":"17","first_page":"2511","last_page":"2513"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9883000254631042,"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":0.9883000254631042,"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":0.005499999970197678,"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/T10836","display_name":"Metabolomics and Mass Spectrometry Studies","score":0.001500000013038516,"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/normalization","display_name":"Normalization (sociology)","score":0.7264381051063538},{"id":"https://openalex.org/keywords/raw-data","display_name":"Raw data","score":0.6325167417526245},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.6155133247375488},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6104146838188171},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.5849791169166565},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5511132478713989},{"id":"https://openalex.org/keywords/quantitative-proteomics","display_name":"Quantitative proteomics","score":0.47628822922706604},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4024434983730316},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.22527149319648743},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.1920684576034546}],"concepts":[{"id":"https://openalex.org/C136886441","wikidata":"https://www.wikidata.org/wiki/Q926129","display_name":"Normalization (sociology)","level":2,"score":0.7264381051063538},{"id":"https://openalex.org/C132964779","wikidata":"https://www.wikidata.org/wiki/Q2110223","display_name":"Raw data","level":2,"score":0.6325167417526245},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.6155133247375488},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6104146838188171},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.5849791169166565},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5511132478713989},{"id":"https://openalex.org/C80311884","wikidata":"https://www.wikidata.org/wiki/Q7268939","display_name":"Quantitative proteomics","level":4,"score":0.47628822922706604},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4024434983730316},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.22527149319648743},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.1920684576034546},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"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/C19165224","wikidata":"https://www.wikidata.org/wiki/Q23404","display_name":"Anthropology","level":1,"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":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":true},{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","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":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","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":true},{"descriptor_ui":"D053719","descriptor_name":"Tandem Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":9,"locations":[{"id":"doi:10.1093/bioinformatics/btu200","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu200","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/17/2511/48927082/bioinformatics_30_17_2511.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24753486","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24753486","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:www.zora.uzh.ch:154407","is_oa":true,"landing_page_url":"https://www.zora.uzh.ch/id/eprint/154407/1/ZORA_NL_154407.pdf","pdf_url":"https://www.zora.uzh.ch/id/eprint/154407/1/ZORA_NL_154407.pdf","source":{"id":"https://openalex.org/S4306401281","display_name":"Zurich Open Repository and Archive (University of Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I202697423","host_organization_name":"University of Zurich","host_organization_lineage":["https://openalex.org/I202697423"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"Rosenberger, George; Ludwig, Christina; R\u00f6st, Hannes L; Aebersold, Ruedi; Malmstr\u00f6m, Lars (2014). aLFQ: an R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data. Bioinformatics, 30(17):2511-2513.","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doc.rero.ch:294483","is_oa":false,"landing_page_url":"http://doc.rero.ch/record/294483/files/btu200.pdf","pdf_url":"http://doc.rero.ch/record/294483/files/btu200.pdf","source":{"id":"https://openalex.org/S4306400148","display_name":"reroDoc Digital Library","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I67311998","host_organization_name":"European Organization for Nuclear Research","host_organization_lineage":["https://openalex.org/I67311998"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":null},{"id":"pmh:oai:www.research-collection.ethz.ch:20.500.11850/89391","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/89391","pdf_url":"http://hdl.handle.net/20.500.11850/89391","source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 30 (17)","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4147881","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4147881","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:doi:10.5167/uzh-154407","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4406922384","display_name":"Open MIND","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":null,"raw_type":"Text"},{"id":"doi:10.3929/ethz-b-000089391","is_oa":true,"landing_page_url":"https://doi.org/10.3929/ethz-b-000089391","pdf_url":null,"source":{"id":"https://openalex.org/S7407051236","display_name":"ETH Z\u00fcrich Research Collection","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Other"},{"id":"doi:10.5167/uzh-154407","is_oa":true,"landing_page_url":"https://doi.org/10.5167/uzh-154407","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"JournalArticle"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu200","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu200","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/17/2511/48927082/bioinformatics_30_17_2511.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.44999998807907104}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"},{"id":"https://openalex.org/F4320320998","display_name":"Kommission f\u00fcr Technologie und Innovation","ror":"https://ror.org/012y9zp98"},{"id":"https://openalex.org/F4320327577","display_name":"SystemsX.ch","ror":"https://ror.org/02s09gf16"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2135233310.pdf","grobid_xml":"https://content.openalex.org/works/W2135233310.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W1986887325","https://openalex.org/W2001472155","https://openalex.org/W2008214517","https://openalex.org/W2041852635","https://openalex.org/W2053894359","https://openalex.org/W2128551987","https://openalex.org/W2141323537","https://openalex.org/W2148342439","https://openalex.org/W2165925503"],"related_works":["https://openalex.org/W2160416873","https://openalex.org/W3081950544","https://openalex.org/W3089696757","https://openalex.org/W2000259163","https://openalex.org/W2374027747","https://openalex.org/W1990519872","https://openalex.org/W3005464483","https://openalex.org/W1574322319","https://openalex.org/W2097713953","https://openalex.org/W656697834"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1,145],"determination":[2],"of":[3,6,16,48],"absolute":[4,32,61,73,92],"quantities":[5,34],"proteins":[7],"in":[8,26,125,142],"biological":[9],"samples":[10],"is":[11,123],"necessary":[12],"for":[13,104],"multiple":[14],"types":[15,47],"scientific":[17],"inquiry.":[18],"While":[19],"relative":[20],"quantification":[21,75],"has":[22,76],"been":[23,36,43,77],"commonly":[24,90],"used":[25,91],"proteomics,":[27],"few":[28],"proteomic":[29],"datasets":[30],"measuring":[31],"protein":[33,74,94],"have":[35,42],"reported":[37],"to":[38],"date.":[39],"Various":[40],"technologies":[41],"applied":[44],"using":[45],"different":[46,60],"input":[49],"data,":[50,107],"e.g.":[51],"ion":[52],"intensities":[53],"or":[54],"spectral":[55],"counts,":[56],"as":[57,59],"well":[58],"normalization":[62],"strategies.":[63],"To":[64],"date,":[65],"a":[66,82],"user-friendly":[67],"and":[68,102,116,127,137],"transparent":[69],"software":[70],"supporting":[71],"large-scale":[72],"lacking.":[78],"RESULTS:":[79],"We":[80],"present":[81],"bioinformatics":[83],"tool,":[84],"termed":[85],"aLFQ,":[86],"which":[87],"supports":[88],"the":[89,131,143,152],"label-free":[93],"abundance":[95],"estimation":[96],"methods":[97],"(TopN,":[98],"iBAQ,":[99],"APEX,":[100],"NSAF":[101],"SCAMPI)":[103],"LC-MS/MS":[105],"proteomics":[106],"together":[108],"with":[109],"validation":[110],"algorithms":[111],"enabling":[112],"automated":[113],"data":[114,139,147,155,161],"analysis":[115],"error":[117],"estimation.":[118],"AVAILABILITY":[119],"AND":[120],"IMPLEMENTATION:":[121],"aLFQ":[122],"written":[124],"R":[126],"freely":[128],"available":[129,163],"under":[130],"GPLv3":[132],"from":[133,151],"CRAN":[134],"(http://www.cran.r-project.org).":[135],"Instructions":[136],"example":[138],"are":[140,162],"provided":[141],"R-package.":[144],"raw":[146,154],"can":[148],"be":[149],"obtained":[150],"PeptideAtlas":[153],"repository":[156],"(PASS00321).":[157],"SUPPLEMENTARY":[158],"INFORMATION:":[159],"Supplementary":[160],"at":[164],"Bioinformatics":[165],"online.":[166]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":3},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":8},{"year":2016,"cited_by_count":11},{"year":2015,"cited_by_count":7},{"year":2014,"cited_by_count":2}],"updated_date":"2026-08-11T07:18:39.950985","created_date":"2025-10-10T00:00:00"}
