{"id":"https://openalex.org/W4410115151","doi":"https://doi.org/10.1109/jbhi.2025.3567518","title":"TSLAmy: A Novel Amyloid Hexapeptide Aggregation Prediction Approach Based on Two-Stage Learning","display_name":"TSLAmy: A Novel Amyloid Hexapeptide Aggregation Prediction Approach Based on Two-Stage Learning","publication_year":2025,"publication_date":"2025-05-06","ids":{"openalex":"https://openalex.org/W4410115151","doi":"https://doi.org/10.1109/jbhi.2025.3567518","pmid":"https://pubmed.ncbi.nlm.nih.gov/40327471"},"language":"en","primary_location":{"id":"doi:10.1109/jbhi.2025.3567518","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2025.3567518","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Journal of Biomedical and Health Informatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","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/A5070754234","display_name":"Lan Huang","orcid":"https://orcid.org/0000-0002-3140-4687"},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]},{"id":"https://openalex.org/I4210134929","display_name":"Jilin Province Science and Technology Department","ror":"https://ror.org/049x38272","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210134929"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Lan Huang","raw_affiliation_strings":["College of Computer Science and Technology, and Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, China","School of College of Computer Science and Technology, Jilin University, Changchun, China"],"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, and Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, China","institution_ids":["https://openalex.org/I194450716"]},{"raw_affiliation_string":"School of College of Computer Science and Technology, Jilin University, Changchun, China","institution_ids":["https://openalex.org/I4210134929","https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100707352","display_name":"Qian Jiang","orcid":"https://orcid.org/0000-0001-7131-0522"},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]},{"id":"https://openalex.org/I4210134929","display_name":"Jilin Province Science and Technology Department","ror":"https://ror.org/049x38272","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210134929"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qingchen Jiang","raw_affiliation_strings":["College of Computer Science and Technology, and Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, China","School of College of Computer Science and Technology, Jilin University, Changchun, China"],"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, and Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, China","institution_ids":["https://openalex.org/I194450716"]},{"raw_affiliation_string":"School of College of Computer Science and Technology, Jilin University, Changchun, China","institution_ids":["https://openalex.org/I4210134929","https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070903399","display_name":"Youling L. Xiong","orcid":"https://orcid.org/0000-0002-2164-4783"},"institutions":[{"id":"https://openalex.org/I194450716","display_name":"Jilin University","ror":"https://ror.org/00js3aw79","country_code":"CN","type":"education","lineage":["https://openalex.org/I194450716"]},{"id":"https://openalex.org/I4210134929","display_name":"Jilin Province Science and Technology Department","ror":"https://ror.org/049x38272","country_code":"CN","type":"government","lineage":["https://openalex.org/I4210134929"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yucong Xiong","raw_affiliation_strings":["College of Computer Science and Technology, and Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, China","School of College of Computer Science and Technology, Jilin University, Changchun, China"],"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, and Key Laboratory of Symbolic Computation and Knowledge Engineering of Ministry of Education, Jilin University, Changchun, China","institution_ids":["https://openalex.org/I194450716"]},{"raw_affiliation_string":"School of College of Computer Science and Technology, Jilin University, Changchun, China","institution_ids":["https://openalex.org/I4210134929","https://openalex.org/I194450716"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102023597","display_name":"Guangzhao Zhang","orcid":"https://orcid.org/0009-0003-9193-4246"},"institutions":[{"id":"https://openalex.org/I106645853","display_name":"Changchun University of Science and Technology","ror":"https://ror.org/007mntk44","country_code":"CN","type":"education","lineage":["https://openalex.org/I106645853"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Guangzhao Zhang","raw_affiliation_strings":["College of Computer Science and Technology, Changchun University, Changchun, China","School of College of Computer Science and Technology, Changchun University, Changchun, China"],"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Changchun University, Changchun, China","institution_ids":["https://openalex.org/I106645853"]},{"raw_affiliation_string":"School of College of Computer Science and Technology, Changchun University, Changchun, China","institution_ids":["https://openalex.org/I106645853"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023665938","display_name":"Dan Shao","orcid":"https://orcid.org/0000-0003-1050-2808"},"institutions":[{"id":"https://openalex.org/I106645853","display_name":"Changchun University of Science and Technology","ror":"https://ror.org/007mntk44","country_code":"CN","type":"education","lineage":["https://openalex.org/I106645853"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dan Shao","raw_affiliation_strings":["College of Computer Science and Technology, Changchun University, Changchun, China","School of College of Computer Science and Technology, Changchun University, Changchun, China"],"affiliations":[{"raw_affiliation_string":"College of Computer Science and Technology, Changchun University, Changchun, China","institution_ids":["https://openalex.org/I106645853"]},{"raw_affiliation_string":"School of College of Computer Science and Technology, Changchun University, Changchun, China","institution_ids":["https://openalex.org/I106645853"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5070754234"],"corresponding_institution_ids":["https://openalex.org/I194450716","https://openalex.org/I4210134929"],"apc_list":null,"apc_paid":null,"fwci":0.8516,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.72782161,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"29","issue":"10","first_page":"7741","last_page":"7752"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9984999895095825,"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":0.9984999895095825,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.977400004863739,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9136999845504761,"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":0.6557533740997314},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5812692046165466},{"id":"https://openalex.org/keywords/amyloid","display_name":"Amyloid (mycology)","score":0.5213169455528259},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4229668378829956},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.23689600825309753}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6557533740997314},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5812692046165466},{"id":"https://openalex.org/C2777633098","wikidata":"https://www.wikidata.org/wiki/Q2736051","display_name":"Amyloid (mycology)","level":2,"score":0.5213169455528259},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4229668378829956},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.23689600825309753},{"id":"https://openalex.org/C179104552","wikidata":"https://www.wikidata.org/wiki/Q11165","display_name":"Inorganic chemistry","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":"D000682","descriptor_name":"Amyloid","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D000682","descriptor_name":"Amyloid","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"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":"D009842","descriptor_name":"Oligopeptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D009842","descriptor_name":"Oligopeptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D066329","descriptor_name":"Protein Aggregates","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066329","descriptor_name":"Protein Aggregates","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1109/jbhi.2025.3567518","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2025.3567518","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Journal of Biomedical and Health Informatics","raw_type":"journal-article"},{"id":"pmid:40327471","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40327471","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":"IEEE journal of biomedical and health informatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.6600000262260437,"display_name":"Zero hunger","id":"https://metadata.un.org/sdg/2"}],"awards":[{"id":"https://openalex.org/G3380686447","display_name":null,"funder_award_id":"20240101364JC","funder_id":"https://openalex.org/F4320335953","funder_display_name":"Jilin Scientific and Technological Development Program"},{"id":"https://openalex.org/G5060764087","display_name":null,"funder_award_id":"20230101236JC","funder_id":"https://openalex.org/F4320335953","funder_display_name":"Jilin Scientific and Technological Development Program"}],"funders":[{"id":"https://openalex.org/F4320335953","display_name":"Jilin Scientific and Technological Development Program","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":38,"referenced_works":["https://openalex.org/W1545063083","https://openalex.org/W1970577444","https://openalex.org/W2009962980","https://openalex.org/W2043498599","https://openalex.org/W2043876754","https://openalex.org/W2054942361","https://openalex.org/W2076455712","https://openalex.org/W2076713412","https://openalex.org/W2080831965","https://openalex.org/W2081164888","https://openalex.org/W2110686214","https://openalex.org/W2125493700","https://openalex.org/W2133425057","https://openalex.org/W2141057671","https://openalex.org/W2157873167","https://openalex.org/W2417663658","https://openalex.org/W2761583818","https://openalex.org/W2762906948","https://openalex.org/W2883577455","https://openalex.org/W2899141531","https://openalex.org/W2972174635","https://openalex.org/W3088023295","https://openalex.org/W3105706706","https://openalex.org/W3127602688","https://openalex.org/W3189884545","https://openalex.org/W4205773061","https://openalex.org/W4280537238","https://openalex.org/W4327550249","https://openalex.org/W4353051753","https://openalex.org/W4365150919","https://openalex.org/W4385366684","https://openalex.org/W4385667255","https://openalex.org/W4388979610","https://openalex.org/W4391280974","https://openalex.org/W4392876698","https://openalex.org/W4400834138","https://openalex.org/W4401021891","https://openalex.org/W4405022532"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4306674287","https://openalex.org/W4387369504","https://openalex.org/W4394896187","https://openalex.org/W3170094116","https://openalex.org/W4386462264","https://openalex.org/W3107602296","https://openalex.org/W4364306694","https://openalex.org/W4312192474","https://openalex.org/W4283697347"],"abstract_inverted_index":{"Identifying":[0],"aggregation-prone":[1,209,223],"proteins":[2],"or":[3],"peptides":[4],"is":[5],"essential":[6],"for":[7,73,150,154],"advancing":[8],"our":[9],"understanding":[10],"of":[11,173,182,197,222],"amyloid":[12,22,46,74],"aggregation":[13,163,171,195],"processes":[14],"and":[15,30,64,99,114,131,202],"their":[16,97,129],"related":[17],"pathogenic":[18],"mechanisms.":[19],"Recognizing":[20],"potential":[21,172,196],"hexapeptides":[23,47,95,126,201],"can":[24,215],"also":[25],"support":[26],"peptide-based":[27],"drug":[28,230],"design":[29],"reduce":[31],"experimental":[32,176],"costs.":[33],"In":[34,53],"this":[35],"study,":[36],"we":[37,57,69,83,122,192],"proposed":[38],"TSLAmy,":[39],"a":[40,49,85],"computational":[41],"model":[42,72],"designed":[43],"to":[44,78,108,140,168,226],"predict":[45,169],"using":[48,96],"two-stage":[50],"learning":[51],"framework.":[52],"the":[54,62,66,110,119,145,159,162,170,180,194,204,220],"first":[55,120],"stage,":[56,68,121,161],"performed":[58],"feature":[59,135],"extraction":[60,136],"on":[61,92,128],"hexapeptides,":[63],"in":[65,118,158,228],"second":[67,160],"presented":[70],"prediction":[71,164],"hexapeptide":[75],"aggregation.":[76],"Firstly,":[77],"ensure":[79],"balanced":[80],"dataset":[81],"partitioning,":[82],"applied":[84],"clustering-based":[86],"method":[87],"by":[88],"training":[89,113],"two":[90],"autoencoders":[91],"all":[93,198],"possible":[94,200],"sequence":[98,130,152],"physicochemical":[100,132,142],"features,":[101,143],"respectively.":[102],"The":[103,134,175],"resulting":[104],"clusters":[105],"were":[106],"used":[107,139],"stratify":[109],"data":[111],"into":[112,219],"testing":[115],"datasets.":[116],"Then,":[117],"extracted":[123],"features":[124,153],"from":[125],"based":[127],"properties.":[133],"module":[137,147,165],"was":[138,148,166],"obtain":[141],"while":[144],"ESM-2":[146],"responsible":[149],"extracting":[151],"each":[155],"hexapeptide.":[156],"Finally,":[157],"employed":[167],"hexapeptides.":[174,210],"results":[177],"demonstrated":[178],"that":[179,207,213],"accuracy":[181],"TSLAmy":[183,214],"reached":[184],"0.8493":[185],"(0.8447-0.8539),":[186],"outperforming":[187],"other":[188],"state-of-the-art":[189],"methods.":[190],"Furthermore,":[191],"predicted":[193],"64,000,000":[199],"analyzed":[203],"amino":[205],"acids":[206],"form":[208],"We":[211],"anticipate":[212],"offer":[216],"new":[217],"insights":[218],"identification":[221],"peptides,":[224],"contributing":[225],"advancements":[227],"peptide":[229],"development.":[231]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
