{"id":"https://openalex.org/W2135730432","doi":"https://doi.org/10.1093/bioinformatics/btt726","title":"SILVER: an efficient tool for stable isotope labeling LC-MS data quantitative analysis with quality control methods","display_name":"SILVER: an efficient tool for stable isotope labeling LC-MS data quantitative analysis with quality control methods","publication_year":2013,"publication_date":"2013-12-15","ids":{"openalex":"https://openalex.org/W2135730432","doi":"https://doi.org/10.1093/bioinformatics/btt726","mag":"2135730432","pmid":"https://pubmed.ncbi.nlm.nih.gov/24344194"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt726","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt726","pdf_url":null,"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":null,"license_id":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5041872254","display_name":"Cheng Chang","orcid":"https://orcid.org/0000-0002-0361-2438"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Cheng Chang","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5107247510","display_name":"Jiyang Zhang","orcid":"https://orcid.org/0000-0001-8211-3321"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiyang Zhang","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066841335","display_name":"Mingfei Han","orcid":"https://orcid.org/0000-0002-6036-6309"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Mingfei Han","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054309071","display_name":"Jie Ma","orcid":"https://orcid.org/0000-0002-8934-922X"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jie Ma","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100620797","display_name":"Wei Zhang","orcid":"https://orcid.org/0000-0003-0512-3096"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wei Zhang","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102717235","display_name":"Songfeng Wu","orcid":"https://orcid.org/0009-0004-6355-741X"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Songfeng Wu","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102722218","display_name":"Kehui Liu","orcid":"https://orcid.org/0000-0001-5727-2291"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kehui Liu","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108195531","display_name":"Hongwei Xie","orcid":null},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Hongwei Xie","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091436402","display_name":"Fuchu He","orcid":"https://orcid.org/0000-0002-8571-2351"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Fuchu He","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100765277","display_name":"Yunping Zhu","orcid":"https://orcid.org/0000-0002-7320-7411"},"institutions":[{"id":"https://openalex.org/I170215575","display_name":"National University of Defense Technology","ror":"https://ror.org/05d2yfz11","country_code":"CN","type":"education","lineage":["https://openalex.org/I170215575"]},{"id":"https://openalex.org/I4210149540","display_name":"Beijing Proteome Research Center","ror":"https://ror.org/05pp5b412","country_code":"CN","type":"facility","lineage":["https://openalex.org/I4210149540"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yunping Zhu","raw_affiliation_strings":["1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioinformatics, State Key Laboratory of Proteomics, Beijing Proteome Research Center, National Center for Protein Sciences Beijing, Institute of Radiation Medicine and 2Department of Bioinformatics, National Engineering Research Center for Protein Drugs, Beijing 102206, 3Department of Automatic Control, College of Mechatronics and Automation, National University of Defense Technology, Changsha, Hunan 410073 and 4Department of Chemistry, Institutes of Biomedical Sciences, 130 DongAn Road, Fudan University, Shanghai 200032, P.R. China","institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5091436402","https://openalex.org/A5100765277","https://openalex.org/A5108195531"],"corresponding_institution_ids":["https://openalex.org/I170215575","https://openalex.org/I4210149540"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.1736,"has_fulltext":false,"cited_by_count":26,"citation_normalized_percentile":{"value":0.8633537,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"30","issue":"4","first_page":"586","last_page":"587"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9765999913215637,"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":0.9765999913215637,"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":0.007600000128149986,"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":0.0019000000320374966,"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":0.6926846504211426},{"id":"https://openalex.org/keywords/mit-license","display_name":"MIT License","score":0.5713443756103516},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5483825206756592},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.5155410766601562},{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.4653272032737732},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4618261456489563},{"id":"https://openalex.org/keywords/quantitative-proteomics","display_name":"Quantitative proteomics","score":0.4253196716308594},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4040248990058899},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3304796516895294},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2889488935470581},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.25965163111686707},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.22925689816474915},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12013131380081177},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.10033676028251648}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6926846504211426},{"id":"https://openalex.org/C174183944","wikidata":"https://www.wikidata.org/wiki/Q334661","display_name":"MIT License","level":3,"score":0.5713443756103516},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5483825206756592},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.5155410766601562},{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.4653272032737732},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4618261456489563},{"id":"https://openalex.org/C80311884","wikidata":"https://www.wikidata.org/wiki/Q7268939","display_name":"Quantitative proteomics","level":4,"score":0.4253196716308594},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4040248990058899},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3304796516895294},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2889488935470581},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.25965163111686707},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.22925689816474915},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12013131380081177},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.10033676028251648},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D002853","descriptor_name":"Chromatography, Liquid","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D007553","descriptor_name":"Isotope Labeling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007553","descriptor_name":"Isotope Labeling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007553","descriptor_name":"Isotope Labeling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000032","qualifier_name":"analysis","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":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011786","descriptor_name":"Quality Control","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":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":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000032","qualifier_name":"analysis","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000032","qualifier_name":"analysis","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":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btt726","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt726","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24344194","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24344194","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}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.4399999976158142}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":15,"referenced_works":["https://openalex.org/W161698943","https://openalex.org/W1972600929","https://openalex.org/W1975721281","https://openalex.org/W2002264839","https://openalex.org/W2019196704","https://openalex.org/W2036321220","https://openalex.org/W2037334311","https://openalex.org/W2076056792","https://openalex.org/W2076537725","https://openalex.org/W2080752012","https://openalex.org/W2112078820","https://openalex.org/W2119298339","https://openalex.org/W2137761732","https://openalex.org/W2140946052","https://openalex.org/W6677968347"],"related_works":["https://openalex.org/W1973959357","https://openalex.org/W2360158017","https://openalex.org/W2042018563","https://openalex.org/W2166040922","https://openalex.org/W1978136576","https://openalex.org/W28513596","https://openalex.org/W2025671111","https://openalex.org/W2097785509","https://openalex.org/W2409848145","https://openalex.org/W2109156884"],"abstract_inverted_index":{"SUMMARY:":[0],"With":[1],"the":[2,29,63,134],"advance":[3],"of":[4,43,65,70],"experimental":[5],"technologies,":[6],"different":[7],"stable":[8,30],"isotope":[9,31],"labeling":[10,32],"methods":[11,39],"have":[12],"been":[13],"widely":[14],"applied":[15],"to":[16,61],"quantitative":[17],"proteomics.":[18],"Here,":[19],"we":[20],"present":[21],"an":[22],"efficient":[23],"tool":[24],"named":[25],"SILVER":[26,36,71,93,106,125],"for":[27,40,110],"processing":[28,103],"mass":[33],"spectrometry":[34],"data.":[35],"implements":[37],"novel":[38],"quality":[41],"control":[42],"quantification":[44,54,66],"at":[45,140],"spectrum,":[46],"peptide":[47],"and":[48,57,74,78,85,97,117,126],"protein":[49],"levels,":[50],"respectively.":[51],"Several":[52],"new":[53],"confidence":[55],"filters":[56],"indices":[58],"are":[59,130],"used":[60],"improve":[62],"accuracy":[64,96],"results.":[67],"The":[68,89],"performance":[69],"was":[72],"verified":[73],"compared":[75],"with":[76],"MaxQuant":[77],"Proteome":[79],"Discoverer":[80],"using":[81],"a":[82],"large-scale":[83],"dataset":[84],"two":[86],"standard":[87],"datasets.":[88],"results":[90],"suggest":[91],"that":[92],"shows":[94],"high":[95],"robustness":[98],"while":[99],"consuming":[100],"much":[101],"less":[102],"time.":[104],"Additionally,":[105],"provides":[107],"user-friendly":[108],"interfaces":[109],"parameter":[111],"setting,":[112],"result":[113],"visualization,":[114],"manual":[115],"validation":[116],"some":[118],"useful":[119],"statistics":[120],"analyses.":[121],"AVAILABILITY":[122],"AND":[123],"IMPLEMENTATION:":[124],"its":[127],"source":[128],"codes":[129],"freely":[131],"available":[132],"under":[133],"GNU":[135],"General":[136],"Public":[137],"License":[138],"v3.0":[139],"http://bioinfo.hupo.org.cn/silver.":[141]},"counts_by_year":[{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":5},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":6},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1}],"updated_date":"2026-06-23T06:36:01.041984","created_date":"2025-10-10T00:00:00"}
