{"id":"https://openalex.org/W4387701156","doi":"https://doi.org/10.1093/bioinformatics/btad627","title":"Adaptive learning embedding features to improve the predictive performance of SARS-CoV-2 phosphorylation sites","display_name":"Adaptive learning embedding features to improve the predictive performance of SARS-CoV-2 phosphorylation sites","publication_year":2023,"publication_date":"2023-10-17","ids":{"openalex":"https://openalex.org/W4387701156","doi":"https://doi.org/10.1093/bioinformatics/btad627","pmid":"https://pubmed.ncbi.nlm.nih.gov/37847658"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btad627","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad627","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad627/52191158/btad627.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad627/52191158/btad627.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5026552847","display_name":"Shihu Jiao","orcid":"https://orcid.org/0000-0001-7428-4876"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Shihu Jiao","raw_affiliation_strings":["Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","Department of Computer Science, University of Tsukuba, Tsukuba, 3058577, Japan"],"raw_orcid":"https://orcid.org/0000-0001-7428-4876","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba, Tsukuba, 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063256241","display_name":"Xiucai Ye","orcid":"https://orcid.org/0000-0002-5547-3919"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Xiucai Ye","raw_affiliation_strings":["Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","Department of Computer Science, University of Tsukuba, Tsukuba, 3058577, Japan"],"raw_orcid":"https://orcid.org/0000-0002-5547-3919","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba, Tsukuba, 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016729401","display_name":"Chunyan Ao","orcid":"https://orcid.org/0000-0002-3008-6357"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chunyan Ao","raw_affiliation_strings":["Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China , Chengdu, China"],"raw_orcid":"https://orcid.org/0000-0002-3008-6357","affiliations":[{"raw_affiliation_string":"Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China , Chengdu, China","institution_ids":["https://openalex.org/I150229711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038336830","display_name":"Tetsuya Sakurai","orcid":"https://orcid.org/0000-0002-5789-7547"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Tetsuya Sakurai","raw_affiliation_strings":["Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","Department of Computer Science, University of Tsukuba, Tsukuba, 3058577, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba, Tsukuba, 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017426085","display_name":"Quan Zou","orcid":"https://orcid.org/0000-0001-6406-1142"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]},{"id":"https://openalex.org/I4210123686","display_name":"Quzhou University","ror":"https://ror.org/024nfx323","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210123686"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Quan Zou","raw_affiliation_strings":["Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China , Chengdu, China","Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China , Quzhou, China"],"raw_orcid":"https://orcid.org/0000-0001-6406-1142","affiliations":[{"raw_affiliation_string":"Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China , Chengdu, China","institution_ids":["https://openalex.org/I150229711"]},{"raw_affiliation_string":"Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China , Quzhou, China","institution_ids":["https://openalex.org/I4210123686","https://openalex.org/I150229711"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100622723","display_name":"Lei Xu","orcid":"https://orcid.org/0000-0002-6440-6881"},"institutions":[{"id":"https://openalex.org/I182722699","display_name":"Shenzhen Polytechnic University","ror":"https://ror.org/00d2w9g53","country_code":"CN","type":"education","lineage":["https://openalex.org/I182722699"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Lei Xu","raw_affiliation_strings":["School of Electronic and Communication Engineering, Shenzhen Polytechnic , No. 4089 Shahexi Road , Shenzhen 518000, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Electronic and Communication Engineering, Shenzhen Polytechnic , No. 4089 Shahexi Road , Shenzhen 518000, China","institution_ids":["https://openalex.org/I182722699"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5063256241","https://openalex.org/A5100622723"],"corresponding_institution_ids":["https://openalex.org/I146399215","https://openalex.org/I182722699"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.9782,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.86637816,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":98,"max":99},"biblio":{"volume":"39","issue":"11","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9972000122070312,"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":0.9972000122070312,"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/T10118","display_name":"SARS-CoV-2 and COVID-19 Research","score":0.9842000007629395,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T12946","display_name":"Fractal and DNA sequence analysis","score":0.9783999919891357,"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":0.6176930665969849},{"id":"https://openalex.org/keywords/discriminative-model","display_name":"Discriminative model","score":0.6033990383148193},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.5708568096160889},{"id":"https://openalex.org/keywords/phosphorylation","display_name":"Phosphorylation","score":0.540120005607605},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4851601719856262},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4829256236553192},{"id":"https://openalex.org/keywords/embedding","display_name":"Embedding","score":0.41531726717948914},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.35471439361572266},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3014512062072754},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12201935052871704}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6176930665969849},{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.6033990383148193},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.5708568096160889},{"id":"https://openalex.org/C11960822","wikidata":"https://www.wikidata.org/wiki/Q242736","display_name":"Phosphorylation","level":2,"score":0.540120005607605},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4851601719856262},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4829256236553192},{"id":"https://openalex.org/C41608201","wikidata":"https://www.wikidata.org/wiki/Q980509","display_name":"Embedding","level":2,"score":0.41531726717948914},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.35471439361572266},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3014512062072754},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12201935052871704},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","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":"D000465","descriptor_name":"Algorithms","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010766","descriptor_name":"Phosphorylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btad627","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad627","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad627/52191158/btad627.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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:37847658","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37847658","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:pubmedcentral.nih.gov:10628388","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10628388","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10628388/pdf/btad627.pdf","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:oai:tsukuba.repo.nii.ac.jp:02009173","is_oa":true,"landing_page_url":"http://hdl.handle.net/2241/0002009173","pdf_url":"https://tsukuba.repo.nii.ac.jp/record/2009173/files/Bioinformatics_39-11.pdf","source":{"id":"https://openalex.org/S4306402076","display_name":"Terrestrial Environment Research Center (University of Tsukuba)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I146399215","host_organization_name":"University of Tsukuba","host_organization_lineage":["https://openalex.org/I146399215"],"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":null,"raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btad627","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad627","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad627/52191158/btad627.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":[{"display_name":"Reduced inequalities","score":0.6600000262260437,"id":"https://metadata.un.org/sdg/10"}],"awards":[{"id":"https://openalex.org/G1293060989","display_name":null,"funder_award_id":"JPMJPF2017","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G1950104911","display_name":null,"funder_award_id":"JP23H03411","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"},{"id":"https://openalex.org/G457114669","display_name":null,"funder_award_id":"62202081","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5082899461","display_name":null,"funder_award_id":"62271329","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5133105583","display_name":null,"funder_award_id":"62131004","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6446245973","display_name":null,"funder_award_id":"62250028","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7184098351","display_name":null,"funder_award_id":"JP22K12144","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4387701156.pdf"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W1555148682","https://openalex.org/W1596275185","https://openalex.org/W1762366815","https://openalex.org/W1993450321","https://openalex.org/W2101234009","https://openalex.org/W2130410032","https://openalex.org/W2156125289","https://openalex.org/W2421230118","https://openalex.org/W2512830039","https://openalex.org/W2635415917","https://openalex.org/W2725741216","https://openalex.org/W2742750032","https://openalex.org/W2780936345","https://openalex.org/W2802876915","https://openalex.org/W2889326414","https://openalex.org/W2900206619","https://openalex.org/W2994464657","https://openalex.org/W3004280078","https://openalex.org/W3006645647","https://openalex.org/W3020440546","https://openalex.org/W3022285953","https://openalex.org/W3037945517","https://openalex.org/W3038011569","https://openalex.org/W3101668228","https://openalex.org/W3109351054","https://openalex.org/W3134163647","https://openalex.org/W3154372950","https://openalex.org/W3173360330","https://openalex.org/W3199167353","https://openalex.org/W4225816365","https://openalex.org/W4237593698","https://openalex.org/W4310601281","https://openalex.org/W6633204899","https://openalex.org/W6775565571"],"related_works":["https://openalex.org/W2965546495","https://openalex.org/W4389116644","https://openalex.org/W2153315159","https://openalex.org/W3103844505","https://openalex.org/W259157601","https://openalex.org/W4205463238","https://openalex.org/W2761785940","https://openalex.org/W2110523656","https://openalex.org/W1482209366","https://openalex.org/W2521627374"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1,33,128],"rapid":[2],"and":[3,27,51,70,208,242],"extensive":[4],"transmission":[5],"of":[6,25,35,83,131,137,148,167,174,178,229],"the":[7,45,52,135,145,157,165,172,182,204,213,222,227],"severe":[8],"acute":[9],"respiratory":[10],"syndrome":[11],"coronavirus":[12],"2":[13],"(SARS-CoV-2)":[14],"has":[15],"led":[16],"to":[17,115,189],"an":[18,29,40],"unprecedented":[19],"global":[20,168],"health":[21],"emergency,":[22],"affecting":[23],"millions":[24],"people":[26],"causing":[28],"immense":[30],"socioeconomic":[31],"impact.":[32],"identification":[34],"SARS-CoV-2":[36,84,232],"phosphorylation":[37,99,117,219,230],"sites":[38,67,118,220],"plays":[39],"important":[41],"role":[42],"in":[43,55,86,97,101,119,134,193,225,231],"unraveling":[44],"complex":[46],"molecular":[47],"mechanisms":[48],"behind":[49],"infection":[50,85],"resulting":[53],"alterations":[54],"host":[56,102,121],"cell":[57],"pathways.":[58],"However,":[59],"currently":[60],"available":[61,239],"prediction":[62,206],"tools":[63,207],"for":[64],"identifying":[65],"these":[66],"lack":[68],"accuracy":[69,173],"efficiency.":[71],"RESULTS:":[72],"In":[73,155],"this":[74],"study,":[75],"we":[76],"presented":[77],"a":[78,87,105,138],"comprehensive":[79],"biological":[80],"function":[81],"analysis":[82,177],"clonal":[88],"human":[89,120],"lung":[90],"epithelial":[91],"A549":[92],"cell,":[93],"revealing":[94],"dramatic":[95],"changes":[96],"protein":[98,153],"pathways":[100],"cells.":[103],"Moreover,":[104],"novel":[106],"deep":[107],"learning":[108,140,184],"predictor":[109],"called":[110],"PSPred-ALE":[111,132,202,237],"is":[112,238],"specifically":[113],"designed":[114],"identify":[116,218],"cells":[122],"that":[123,163,181,201],"are":[124,187],"infected":[125],"with":[126],"SARS-CoV-2.":[127],"key":[129],"idea":[130],"lies":[133],"use":[136],"self-adaptive":[139,183],"embedding":[141,185],"algorithm,":[142],"which":[143],"enables":[144,164],"automatic":[146],"extraction":[147],"context":[149],"sequential":[150],"features":[151,179,186,192],"from":[152],"sequences.":[154],"addition,":[156],"tool":[158],"uses":[159],"multihead":[160],"attention":[161],"module":[162],"capturing":[166,194],"information,":[169],"further":[170],"improving":[171],"predictions.":[175],"Comparative":[176],"demonstrated":[180],"superior":[188],"hand-crafted":[190],"statistical":[191],"discriminative":[195],"sequence":[196],"information.":[197],"Benchmarking":[198],"comparison":[199],"shows":[200],"outperforms":[203],"state-of-the-art":[205],"achieves":[209],"robust":[210],"performance.":[211],"Therefore,":[212],"proposed":[214],"model":[215],"can":[216],"effectively":[217],"assistant":[221],"biomedical":[223],"scientists":[224],"understanding":[226],"mechanism":[228],"infection.":[233],"AVAILABILITY":[234],"AND":[235],"IMPLEMENTATION:":[236],"at":[240],"https://github.com/jiaoshihu/PSPred-ALE":[241],"Zenodo":[243],"(https://doi.org/10.5281/zenodo.8330277).":[244]},"counts_by_year":[{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":8}],"updated_date":"2026-06-20T22:02:38.213706","created_date":"2023-10-18T00:00:00"}
