{"id":"https://openalex.org/W2217361398","doi":"https://doi.org/10.1186/1471-2105-16-s18-s10","title":"A two-layered machine learning method to identify protein O-GlcNAcylation sites with O-GlcNAc transferase substrate motifs","display_name":"A two-layered machine learning method to identify protein O-GlcNAcylation sites with O-GlcNAc transferase substrate motifs","publication_year":2015,"publication_date":"2015-12-01","ids":{"openalex":"https://openalex.org/W2217361398","doi":"https://doi.org/10.1186/1471-2105-16-s18-s10","mag":"2217361398","pmid":"https://pubmed.ncbi.nlm.nih.gov/26680539"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-16-s18-s10","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s18-s10","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S18-S10","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S18-S10","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5072614793","display_name":"Hui\u2010Ju Kao","orcid":null},"institutions":[{"id":"https://openalex.org/I99908691","display_name":"Yuan Ze University","ror":"https://ror.org/01fv1ds98","country_code":"TW","type":"education","lineage":["https://openalex.org/I99908691"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Hui-Ju Kao","raw_affiliation_strings":["Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan","institution_ids":["https://openalex.org/I99908691"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023545801","display_name":"Chien\u2010Hsun Huang","orcid":"https://orcid.org/0000-0002-4331-9041"},"institutions":[{"id":"https://openalex.org/I99908691","display_name":"Yuan Ze University","ror":"https://ror.org/01fv1ds98","country_code":"TW","type":"education","lineage":["https://openalex.org/I99908691"]},{"id":"https://openalex.org/I1290491151","display_name":"Ministry of Health and Welfare","ror":"https://ror.org/00vxgjw72","country_code":"KR","type":"government","lineage":["https://openalex.org/I1290491151","https://openalex.org/I2801339556"]}],"countries":["KR","TW"],"is_corresponding":false,"raw_author_name":"Chien-Hsun Huang","raw_affiliation_strings":["Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan","Tao-Yuan Hospital, Ministry of Health & Welfare, Taoyuan, 320, Taiwan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan","institution_ids":["https://openalex.org/I99908691"]},{"raw_affiliation_string":"Tao-Yuan Hospital, Ministry of Health & Welfare, Taoyuan, 320, Taiwan","institution_ids":["https://openalex.org/I1290491151"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045801615","display_name":"Neil Arvin Breta\u00f1a","orcid":"https://orcid.org/0000-0003-4743-348X"},"institutions":[{"id":"https://openalex.org/I31746571","display_name":"UNSW Sydney","ror":"https://ror.org/03r8z3t63","country_code":"AU","type":"education","lineage":["https://openalex.org/I31746571"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Neil Arvin Breta\u00f1a","raw_affiliation_strings":["Inflammation and Infection Research Centre, School of Medical Sciences, University of New South Wales, Sydney, Australia"],"affiliations":[{"raw_affiliation_string":"Inflammation and Infection Research Centre, School of Medical Sciences, University of New South Wales, Sydney, Australia","institution_ids":["https://openalex.org/I31746571"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022425747","display_name":"Cheng-Tsung Lu","orcid":null},"institutions":[{"id":"https://openalex.org/I99908691","display_name":"Yuan Ze University","ror":"https://ror.org/01fv1ds98","country_code":"TW","type":"education","lineage":["https://openalex.org/I99908691"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Cheng-Tsung Lu","raw_affiliation_strings":["Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan","institution_ids":["https://openalex.org/I99908691"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101875147","display_name":"Kai\u2010Yao Huang","orcid":"https://orcid.org/0000-0001-9855-1035"},"institutions":[{"id":"https://openalex.org/I99908691","display_name":"Yuan Ze University","ror":"https://ror.org/01fv1ds98","country_code":"TW","type":"education","lineage":["https://openalex.org/I99908691"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Kai-Yao Huang","raw_affiliation_strings":["Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan","institution_ids":["https://openalex.org/I99908691"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034954530","display_name":"Shun\u2010Long Weng","orcid":null},"institutions":[{"id":"https://openalex.org/I4210127821","display_name":"Mackay Junior College of Medicine, Nursing and Management","ror":"https://ror.org/03j9dwf95","country_code":"TW","type":"education","lineage":["https://openalex.org/I4210127821"]},{"id":"https://openalex.org/I35926432","display_name":"Mackay Medical College","ror":"https://ror.org/00t89kj24","country_code":"TW","type":"education","lineage":["https://openalex.org/I35926432"]},{"id":"https://openalex.org/I2802753785","display_name":"Mackay Memorial Hospital","ror":"https://ror.org/015b6az38","country_code":"TW","type":"healthcare","lineage":["https://openalex.org/I2802753785"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Shun-Long Weng","raw_affiliation_strings":["Department of Medicine, Mackay Medical College, New Taipei City, 252, Taiwan","Department of Obstetrics and Gynecology, Hsinchu Mackay Memorial Hospital, Hsin-Chu, 300, Taiwan","Mackay Junior College of Medicine, Nursing and Management, Taipei, 112, Taiwan"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, Mackay Medical College, New Taipei City, 252, Taiwan","institution_ids":["https://openalex.org/I35926432"]},{"raw_affiliation_string":"Department of Obstetrics and Gynecology, Hsinchu Mackay Memorial Hospital, Hsin-Chu, 300, Taiwan","institution_ids":["https://openalex.org/I2802753785"]},{"raw_affiliation_string":"Mackay Junior College of Medicine, Nursing and Management, Taipei, 112, Taiwan","institution_ids":["https://openalex.org/I4210127821"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5045675277","display_name":"Tzong-Yi Lee","orcid":"https://orcid.org/0000-0001-8475-7868"},"institutions":[{"id":"https://openalex.org/I99908691","display_name":"Yuan Ze University","ror":"https://ror.org/01fv1ds98","country_code":"TW","type":"education","lineage":["https://openalex.org/I99908691"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Tzong-Yi Lee","raw_affiliation_strings":["Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan","Innovation Center for Big Data and Digital Convergence, Yuan Ze University, Taoyuan, 320, Taiwan"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Yuan Ze University, Taoyuan, 320, Taiwan","institution_ids":["https://openalex.org/I99908691"]},{"raw_affiliation_string":"Innovation Center for Big Data and Digital Convergence, Yuan Ze University, Taoyuan, 320, Taiwan","institution_ids":["https://openalex.org/I99908691"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5034954530","https://openalex.org/A5045675277"],"corresponding_institution_ids":["https://openalex.org/I2802753785","https://openalex.org/I35926432","https://openalex.org/I4210127821","https://openalex.org/I99908691"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":2.41,"has_fulltext":true,"cited_by_count":49,"citation_normalized_percentile":{"value":0.89297494,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"16","issue":"S18","first_page":"S10","last_page":"S10"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9998999834060669,"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/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9998999834060669,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9976999759674072,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9961000084877014,"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/uniprot","display_name":"UniProt","score":0.7976939678192139},{"id":"https://openalex.org/keywords/serine","display_name":"Serine","score":0.6676108837127686},{"id":"https://openalex.org/keywords/glycosylation","display_name":"Glycosylation","score":0.6139521598815918},{"id":"https://openalex.org/keywords/threonine","display_name":"Threonine","score":0.5852006673812866},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5118061900138855},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4777885377407074},{"id":"https://openalex.org/keywords/transferase","display_name":"Transferase","score":0.4741080403327942},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.46839451789855957},{"id":"https://openalex.org/keywords/substrate","display_name":"Substrate (aquarium)","score":0.4544908404350281},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.44189032912254333},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.4418322443962097},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.38846102356910706},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.35546261072158813},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27544671297073364},{"id":"https://openalex.org/keywords/enzyme","display_name":"Enzyme","score":0.1956247091293335}],"concepts":[{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.7976939678192139},{"id":"https://openalex.org/C2776414213","wikidata":"https://www.wikidata.org/wiki/Q183290","display_name":"Serine","level":3,"score":0.6676108837127686},{"id":"https://openalex.org/C2777313579","wikidata":"https://www.wikidata.org/wiki/Q898365","display_name":"Glycosylation","level":2,"score":0.6139521598815918},{"id":"https://openalex.org/C2775880066","wikidata":"https://www.wikidata.org/wiki/Q186521","display_name":"Threonine","level":4,"score":0.5852006673812866},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5118061900138855},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4777885377407074},{"id":"https://openalex.org/C2776376580","wikidata":"https://www.wikidata.org/wiki/Q407355","display_name":"Transferase","level":3,"score":0.4741080403327942},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.46839451789855957},{"id":"https://openalex.org/C2777289219","wikidata":"https://www.wikidata.org/wiki/Q7632154","display_name":"Substrate (aquarium)","level":2,"score":0.4544908404350281},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.44189032912254333},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.4418322443962097},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.38846102356910706},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.35546261072158813},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27544671297073364},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.1956247091293335},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000117","descriptor_name":"Acetylglucosamine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000117","descriptor_name":"Acetylglucosamine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000117","descriptor_name":"Acetylglucosamine","qualifier_ui":"Q000378","qualifier_name":"metabolism","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":"D006031","descriptor_name":"Glycosylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006031","descriptor_name":"Glycosylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006031","descriptor_name":"Glycosylation","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":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","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":"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":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013379","descriptor_name":"Substrate Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013379","descriptor_name":"Substrate Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013379","descriptor_name":"Substrate Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017351","descriptor_name":"N-Acetylglucosaminyltransferases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017351","descriptor_name":"N-Acetylglucosaminyltransferases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D017351","descriptor_name":"N-Acetylglucosaminyltransferases","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020816","descriptor_name":"Amino Acid Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-16-s18-s10","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s18-s10","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S18-S10","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26680539","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26680539","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:urm_publish:9916571545001831","is_oa":true,"landing_page_url":"https://find.library.unisa.edu.au/discovery/fulldisplay/alma9916571545001831/61USOUTHAUS_INST:ROR","pdf_url":null,"source":{"id":"https://openalex.org/S4306402528","display_name":"UniSA Research Outputs Repository (University of South Australia)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I170239107","host_organization_name":"University of South Australia","host_organization_lineage":["https://openalex.org/I170239107"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"text"},{"id":"pmh:oai:europepmc.org:3660323","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4682369","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-16-s18-s10","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-16-s18-s10","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-16-S18-S10","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2217361398.pdf","grobid_xml":"https://content.openalex.org/works/W2217361398.grobid-xml"},"referenced_works_count":54,"referenced_works":["https://openalex.org/W1465993224","https://openalex.org/W1568400197","https://openalex.org/W1570204439","https://openalex.org/W1970039616","https://openalex.org/W1970070559","https://openalex.org/W1973060471","https://openalex.org/W1988281953","https://openalex.org/W1995989434","https://openalex.org/W1996786134","https://openalex.org/W1997747884","https://openalex.org/W2004914600","https://openalex.org/W2006296741","https://openalex.org/W2012860378","https://openalex.org/W2013020574","https://openalex.org/W2025379444","https://openalex.org/W2034911881","https://openalex.org/W2037559709","https://openalex.org/W2052135200","https://openalex.org/W2052892694","https://openalex.org/W2063768466","https://openalex.org/W2063866450","https://openalex.org/W2065932276","https://openalex.org/W2075319133","https://openalex.org/W2079074163","https://openalex.org/W2100683979","https://openalex.org/W2104804534","https://openalex.org/W2108631262","https://openalex.org/W2109021234","https://openalex.org/W2110344625","https://openalex.org/W2119493141","https://openalex.org/W2121417968","https://openalex.org/W2129137060","https://openalex.org/W2130277691","https://openalex.org/W2134129243","https://openalex.org/W2140453812","https://openalex.org/W2141818629","https://openalex.org/W2142213435","https://openalex.org/W2148830285","https://openalex.org/W2149376055","https://openalex.org/W2151831732","https://openalex.org/W2152903729","https://openalex.org/W2153635508","https://openalex.org/W2154139219","https://openalex.org/W2154173127","https://openalex.org/W2154522012","https://openalex.org/W2154677603","https://openalex.org/W2155482447","https://openalex.org/W2155853203","https://openalex.org/W2157658519","https://openalex.org/W2164029759","https://openalex.org/W2164412127","https://openalex.org/W2166187656","https://openalex.org/W2168386087","https://openalex.org/W2414622675"],"related_works":["https://openalex.org/W24553703","https://openalex.org/W4211000692","https://openalex.org/W4212920271","https://openalex.org/W4211054902","https://openalex.org/W2612240612","https://openalex.org/W4324018414","https://openalex.org/W2019499077","https://openalex.org/W2004862790","https://openalex.org/W2064479659","https://openalex.org/W3115997886"],"abstract_inverted_index":{"Protein":[0],"O-GlcNAcylation,":[1],"involving":[2],"the":[3,10,31,138,185,196,217],"\u03b2-attachment":[4],"of":[5,13,30,52,72,81,97,141,162,166,171,188,225,229],"single":[6],"N-acetylglucosamine":[7],"(GlcNAc)":[8],"to":[9,43,48,67,113,131,184,193],"hydroxyl":[11],"group":[12],"serine":[14],"or":[15],"threonine":[16],"residues,":[17],"is":[18,242],"an":[19,49,169,174],"O-linked":[20],"glycosylation":[21],"catalyzed":[22],"by":[23,59,100],"O-GlcNAc":[24,41,73],"transferase":[25],"(OGT).":[26],"Molecular":[27],"level":[28],"investigation":[29],"basis":[32],"for":[33,118],"OGT's":[34],"substrate":[35,69,122],"specificity":[36,165],"should":[37],"aid":[38],"understanding":[39],"how":[40],"contributes":[42],"diverse":[44],"cellular":[45],"processes.":[46],"Due":[47],"increasing":[50],"number":[51],"O-GlcNAcylated":[53],"peptides":[54],"with":[55],"site-specific":[56],"information":[57],"identified":[58,120],"mass":[60],"spectrometry":[61],"(MS)-based":[62],"proteomics,":[63],"we":[64],"were":[65,87],"motivated":[66],"characterize":[68],"site":[70,209],"motifs":[71,99],"transferases.":[74],"In":[75],"this":[76],"investigation,":[77],"a":[78,115,133,154,160,164,201,222,237],"non-redundant":[79],"dataset":[80],"410":[82],"experimentally":[83],"verified":[84],"O-GlcNAcylation":[85,208,231],"sites":[86],"manually":[88],"extracted":[89],"from":[90,137,178],"dbOGAP,":[91],"OGlycBase":[92],"and":[93,168,205,232],"UniProtKB.":[94],"After":[95],"detection":[96],"conserved":[98],"using":[101,153],"maximal":[102],"dependence":[103],"decomposition,":[104],"profile":[105,142],"hidden":[106],"Markov":[107],"model":[108,117,135,150],"(profile":[109],"HMM)":[110],"was":[111,128,151,181,191],"adopted":[112],"learn":[114],"first-layered":[116],"each":[119],"OGT":[121],"motif.":[123],"Support":[124],"Vector":[125],"Machine":[126],"(SVM)":[127],"then":[129],"used":[130,192],"generate":[132],"second-layered":[134],"learned":[136],"output":[139],"values":[140],"HMMs":[143],"in":[144],"first":[145],"layer.":[146],"The":[147],"two-layered":[148],"predictive":[149,189],"evaluated":[152],"five-fold":[155],"cross":[156],"validation":[157],"which":[158,180,241],"yielded":[159],"sensitivity":[161],"85.4%,":[163],"84.1%,":[167],"accuracy":[170,203],"84.7%.":[172],"Additionally,":[173],"independent":[175],"testing":[176],"set":[177],"PhosphoSitePlus,":[179],"really":[182],"non-homologous":[183],"training":[186],"data":[187],"model,":[190],"demonstrate":[194],"that":[195,216],"proposed":[197,218],"method":[198,219],"could":[199,220],"provide":[200],"promising":[202],"(84.05%)":[204],"outperform":[206],"other":[207],"prediction":[210],"tools.":[211],"A":[212],"case":[213],"study":[214],"indicated":[215],"be":[221],"feasible":[223],"means":[224],"conducting":[226],"preliminary":[227],"analyses":[228],"protein":[230],"has":[233],"been":[234],"implemented":[235],"as":[236],"web-based":[238],"system,":[239],"OGTSite,":[240],"now":[243],"freely":[244],"available":[245],"at":[246],"http://csb.cse.yzu.edu.tw/OGTSite/.":[247]},"counts_by_year":[{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":6},{"year":2017,"cited_by_count":9},{"year":2015,"cited_by_count":1}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2016-06-24T00:00:00"}
