{"id":"https://openalex.org/W2803149805","doi":"https://doi.org/10.1093/bib/bby036","title":"Proteomic analysis and prediction of amino acid variations that influence protein posttranslational modifications","display_name":"Proteomic analysis and prediction of amino acid variations that influence protein posttranslational modifications","publication_year":2018,"publication_date":"2018-04-14","ids":{"openalex":"https://openalex.org/W2803149805","doi":"https://doi.org/10.1093/bib/bby036","mag":"2803149805","pmid":"https://pubmed.ncbi.nlm.nih.gov/29788276"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bby036","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bby036","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"review","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/A5089248160","display_name":"Shaoping Shi","orcid":"https://orcid.org/0000-0003-0045-868X"},"institutions":[{"id":"https://openalex.org/I141649914","display_name":"Nanchang University","ror":"https://ror.org/042v6xz23","country_code":"CN","type":"education","lineage":["https://openalex.org/I141649914"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shaoping Shi","raw_affiliation_strings":["Department of Mathematics and Numerical Simulation and High-Performance Computing Laboratory, School of Sciences, Nanchang University, Nanchang, Jiangxi 330031, China"],"raw_orcid":"https://orcid.org/0000-0003-0045-868X","affiliations":[{"raw_affiliation_string":"Department of Mathematics and Numerical Simulation and High-Performance Computing Laboratory, School of Sciences, Nanchang University, Nanchang, Jiangxi 330031, China","institution_ids":["https://openalex.org/I141649914"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100385962","display_name":"Lina Wang","orcid":"https://orcid.org/0009-0002-8518-8032"},"institutions":[{"id":"https://openalex.org/I141103825","display_name":"Nanchang Institute of Technology","ror":"https://ror.org/00avfj807","country_code":"CN","type":"education","lineage":["https://openalex.org/I141103825"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lina Wang","raw_affiliation_strings":["Department of Science, Nanchang Institute of Technology, Nanchang, Jiangxi 330031, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Science, Nanchang Institute of Technology, Nanchang, Jiangxi 330031, China","institution_ids":["https://openalex.org/I141103825"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021992806","display_name":"Man Cao","orcid":"https://orcid.org/0000-0001-9521-6311"},"institutions":[{"id":"https://openalex.org/I141649914","display_name":"Nanchang University","ror":"https://ror.org/042v6xz23","country_code":"CN","type":"education","lineage":["https://openalex.org/I141649914"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Man Cao","raw_affiliation_strings":["Department of Mathematics, School of Sciences, Nanchang University, Nanchang, Jiangxi 330031, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics, School of Sciences, Nanchang University, Nanchang, Jiangxi 330031, China","institution_ids":["https://openalex.org/I141649914"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100611876","display_name":"Guodong Chen","orcid":"https://orcid.org/0000-0001-7671-6281"},"institutions":[{"id":"https://openalex.org/I141649914","display_name":"Nanchang University","ror":"https://ror.org/042v6xz23","country_code":"CN","type":"education","lineage":["https://openalex.org/I141649914"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guodong Chen","raw_affiliation_strings":["Department of Mathematics, School of Sciences, Nanchang University, Nanchang, Jiangxi 330031, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics, School of Sciences, Nanchang University, Nanchang, Jiangxi 330031, China","institution_ids":["https://openalex.org/I141649914"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005611002","display_name":"Jialin Yu","orcid":"https://orcid.org/0000-0003-0287-5081"},"institutions":[{"id":"https://openalex.org/I141649914","display_name":"Nanchang University","ror":"https://ror.org/042v6xz23","country_code":"CN","type":"education","lineage":["https://openalex.org/I141649914"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jialin Yu","raw_affiliation_strings":["Department of Mathematics, School of Sciences, Nanchang University, Nanchang, Jiangxi 330031, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics, School of Sciences, Nanchang University, Nanchang, Jiangxi 330031, China","institution_ids":["https://openalex.org/I141649914"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5089248160"],"corresponding_institution_ids":["https://openalex.org/I141649914"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.1862,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.52889095,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"20","issue":"5","first_page":"1597","last_page":"1606"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9994999766349792,"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"}},"topics":[{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9994999766349792,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9994000196456909,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991000294685364,"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/posttranslational-modification","display_name":"Posttranslational modification","score":0.6729998588562012},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5500175952911377},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.5113431811332703},{"id":"https://openalex.org/keywords/amino-acid","display_name":"Amino acid","score":0.4199102222919464},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3488377034664154},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.340842068195343},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3302946090698242},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.30390024185180664},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08747389912605286},{"id":"https://openalex.org/keywords/enzyme","display_name":"Enzyme","score":0.0750599205493927}],"concepts":[{"id":"https://openalex.org/C100631289","wikidata":"https://www.wikidata.org/wiki/Q898362","display_name":"Posttranslational modification","level":3,"score":0.6729998588562012},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5500175952911377},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.5113431811332703},{"id":"https://openalex.org/C515207424","wikidata":"https://www.wikidata.org/wiki/Q8066","display_name":"Amino acid","level":2,"score":0.4199102222919464},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3488377034664154},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.340842068195343},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3302946090698242},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.30390024185180664},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08747389912605286},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0750599205493927}],"mesh":[{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011499","descriptor_name":"Protein Processing, Post-Translational","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D019943","descriptor_name":"Amino Acid Substitution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019943","descriptor_name":"Amino Acid Substitution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019943","descriptor_name":"Amino Acid Substitution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bby036","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bby036","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:29788276","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29788276","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":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.4699999988079071,"id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G2564524915","display_name":null,"funder_award_id":"21305062","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G4262614445","display_name":null,"funder_award_id":"20151BAB203022","funder_id":"https://openalex.org/F4320322665","funder_display_name":"Natural Science Foundation of Jiangxi Province"},{"id":"https://openalex.org/G764822973","display_name":null,"funder_award_id":"21665016","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322665","display_name":"Natural Science Foundation of Jiangxi Province","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":93,"referenced_works":["https://openalex.org/W155495489","https://openalex.org/W847373262","https://openalex.org/W1456919039","https://openalex.org/W1507275725","https://openalex.org/W1544037421","https://openalex.org/W1564499834","https://openalex.org/W1582734106","https://openalex.org/W1595584156","https://openalex.org/W1848460039","https://openalex.org/W1850214287","https://openalex.org/W1940319397","https://openalex.org/W1968312475","https://openalex.org/W1971057981","https://openalex.org/W1975825529","https://openalex.org/W1982564236","https://openalex.org/W1984675437","https://openalex.org/W1995173448","https://openalex.org/W1995989434","https://openalex.org/W1996031439","https://openalex.org/W2003878905","https://openalex.org/W2010746883","https://openalex.org/W2012673284","https://openalex.org/W2012698749","https://openalex.org/W2020455451","https://openalex.org/W2022965734","https://openalex.org/W2028549892","https://openalex.org/W2031352187","https://openalex.org/W2032076692","https://openalex.org/W2034614265","https://openalex.org/W2043026329","https://openalex.org/W2043274355","https://openalex.org/W2045389157","https://openalex.org/W2049035066","https://openalex.org/W2050481433","https://openalex.org/W2050525925","https://openalex.org/W2053765706","https://openalex.org/W2054275091","https://openalex.org/W2073235926","https://openalex.org/W2080878119","https://openalex.org/W2083308064","https://openalex.org/W2098504555","https://openalex.org/W2099686283","https://openalex.org/W2102025585","https://openalex.org/W2103174201","https://openalex.org/W2103622787","https://openalex.org/W2104244040","https://openalex.org/W2107889651","https://openalex.org/W2119109240","https://openalex.org/W2119939131","https://openalex.org/W2121464890","https://openalex.org/W2122664708","https://openalex.org/W2122732537","https://openalex.org/W2133797106","https://openalex.org/W2140409722","https://openalex.org/W2141124151","https://openalex.org/W2144864517","https://openalex.org/W2151031196","https://openalex.org/W2164886087","https://openalex.org/W2165304304","https://openalex.org/W2171137597","https://openalex.org/W2172162168","https://openalex.org/W2205505631","https://openalex.org/W2209329607","https://openalex.org/W2278741011","https://openalex.org/W2293422049","https://openalex.org/W2313411748","https://openalex.org/W2324591007","https://openalex.org/W2340088447","https://openalex.org/W2342878310","https://openalex.org/W2352710988","https://openalex.org/W2387572940","https://openalex.org/W2393314843","https://openalex.org/W2471518332","https://openalex.org/W2472513547","https://openalex.org/W2555962743","https://openalex.org/W2564829293","https://openalex.org/W2598495276","https://openalex.org/W2599457435","https://openalex.org/W2601860898","https://openalex.org/W2604333328","https://openalex.org/W2607450268","https://openalex.org/W2609394459","https://openalex.org/W2614370829","https://openalex.org/W2642879556","https://openalex.org/W2742750032","https://openalex.org/W2791600746","https://openalex.org/W2949528721","https://openalex.org/W6628404858","https://openalex.org/W6630380749","https://openalex.org/W6653733971","https://openalex.org/W6657439475","https://openalex.org/W6735888752","https://openalex.org/W6749192820"],"related_works":["https://openalex.org/W2193237397","https://openalex.org/W1488408180","https://openalex.org/W2084679820","https://openalex.org/W2360290178","https://openalex.org/W2036868240","https://openalex.org/W2088324202","https://openalex.org/W1830980872","https://openalex.org/W2078166165","https://openalex.org/W4283798085","https://openalex.org/W2127236662"],"abstract_inverted_index":{"Accumulative":[0],"studies":[1],"have":[2],"indicated":[3],"that":[4,72,85],"amino":[5,69],"acid":[6,70],"variations":[7,71],"through":[8],"changing":[9],"the":[10,15,47,54,83,95,111],"type":[11],"of":[12,14,56,65,68,99,113],"residues":[13,21],"target":[16],"sites":[17],"or":[18,24],"key":[19],"flanking":[20],"could":[22],"directly":[23],"indirectly":[25],"influence":[26,73],"protein":[27,38,74,105],"posttranslational":[28],"modifications":[29],"(PTMs)":[30],"and":[31,76],"bring":[32],"about":[33],"a":[34],"detrimental":[35],"effect":[36],"on":[37,49],"function.":[39],"Computational":[40],"mutation":[41,103],"analysis":[42],"can":[43],"greatly":[44],"narrow":[45],"down":[46],"efforts":[48],"experimental":[50],"work.":[51],"To":[52],"increase":[53],"utilization":[55],"current":[57],"computational":[58,66],"resources,":[59],"we":[60],"\ufb01rst":[61],"provide":[62],"an":[63],"overview":[64],"prediction":[67],"PTMs":[75,106],"their":[77],"functional":[78],"analysis.":[79],"We":[80],"also":[81],"discuss":[82],"challenges":[84],"are":[86],"faced":[87],"while":[88],"developing":[89],"novel":[90],"in":[91,94],"silico":[92],"approaches":[93],"future.":[96],"The":[97],"development":[98,112],"better":[100],"methods":[101],"for":[102],"analysis-related":[104],"will":[107],"help":[108],"to":[109],"facilitate":[110],"personalized":[114],"precision":[115],"medicine.":[116]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
