{"id":"https://openalex.org/W7135058311","doi":"https://doi.org/10.1371/journal.pcbi.1013397","title":"MoCETSE: A mixture-of-convolutional experts and transformer-based model for predicting Gram-negative bacterial secreted effectors","display_name":"MoCETSE: A mixture-of-convolutional experts and transformer-based model for predicting Gram-negative bacterial secreted effectors","publication_year":2026,"publication_date":"2026-03-11","ids":{"openalex":"https://openalex.org/W7135058311","doi":"https://doi.org/10.1371/journal.pcbi.1013397","pmid":"https://pubmed.ncbi.nlm.nih.gov/41811851"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1013397","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013397","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1371/journal.pcbi.1013397","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5128850577","display_name":"Hua Shi","orcid":null},"institutions":[{"id":"https://openalex.org/I75867142","display_name":"Xiamen University of Technology","ror":"https://ror.org/01285e189","country_code":"CN","type":"education","lineage":["https://openalex.org/I75867142"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hua Shi","raw_affiliation_strings":["School of Opto-electronic and Communication Engineering, Xiamen University of Technology, Xiamen, Fujian, China"],"raw_orcid":"https://orcid.org/0000-0001-8812-5737","affiliations":[{"raw_affiliation_string":"School of Opto-electronic and Communication Engineering, Xiamen University of Technology, Xiamen, Fujian, China","institution_ids":["https://openalex.org/I75867142"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059173593","display_name":"Yihang Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I75867142","display_name":"Xiamen University of Technology","ror":"https://ror.org/01285e189","country_code":"CN","type":"education","lineage":["https://openalex.org/I75867142"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yihang Lin","raw_affiliation_strings":["School of Opto-electronic and Communication Engineering, Xiamen University of Technology, Xiamen, Fujian, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Opto-electronic and Communication Engineering, Xiamen University of Technology, Xiamen, Fujian, China","institution_ids":["https://openalex.org/I75867142"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5128875287","display_name":"Dachen Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I75867142","display_name":"Xiamen University of Technology","ror":"https://ror.org/01285e189","country_code":"CN","type":"education","lineage":["https://openalex.org/I75867142"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dachen Liu","raw_affiliation_strings":["School of Opto-electronic and Communication Engineering, Xiamen University of Technology, Xiamen, Fujian, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Opto-electronic and Communication Engineering, Xiamen University of Technology, Xiamen, Fujian, China","institution_ids":["https://openalex.org/I75867142"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5128838955","display_name":"Quan Zou","orcid":null},"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, Sichuan, China","Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China, Quzhou, Zhejiang, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China, Chengdu, Sichuan, China","institution_ids":["https://openalex.org/I150229711"]},{"raw_affiliation_string":"Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China, Quzhou, Zhejiang, China","institution_ids":["https://openalex.org/I4210123686","https://openalex.org/I150229711"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.29369644,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"22","issue":"3","first_page":"e1013397","last_page":"e1013397"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.8431000113487244,"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":0.8431000113487244,"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.023800000548362732,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T13326","display_name":"Biochemical and Structural Characterization","score":0.019899999722838402,"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/effector","display_name":"Effector","score":0.9280999898910522},{"id":"https://openalex.org/keywords/preprocessor","display_name":"Preprocessor","score":0.5231000185012817},{"id":"https://openalex.org/keywords/protein-sequencing","display_name":"Protein sequencing","score":0.5164999961853027},{"id":"https://openalex.org/keywords/protein\u2013protein-interaction","display_name":"Protein\u2013protein interaction","score":0.3937999904155731},{"id":"https://openalex.org/keywords/protein-domain","display_name":"Protein domain","score":0.3456999957561493},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.34529998898506165},{"id":"https://openalex.org/keywords/secretion","display_name":"Secretion","score":0.32710000872612},{"id":"https://openalex.org/keywords/gene-prediction","display_name":"Gene prediction","score":0.3208000063896179}],"concepts":[{"id":"https://openalex.org/C51785407","wikidata":"https://www.wikidata.org/wiki/Q2627568","display_name":"Effector","level":2,"score":0.9280999898910522},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6342999935150146},{"id":"https://openalex.org/C34736171","wikidata":"https://www.wikidata.org/wiki/Q918333","display_name":"Preprocessor","level":2,"score":0.5231000185012817},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.5164999961853027},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.508400022983551},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4731000065803528},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4456000030040741},{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.3937999904155731},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.362199991941452},{"id":"https://openalex.org/C144292202","wikidata":"https://www.wikidata.org/wiki/Q898273","display_name":"Protein domain","level":3,"score":0.3456999957561493},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.34529998898506165},{"id":"https://openalex.org/C49039625","wikidata":"https://www.wikidata.org/wiki/Q84230","display_name":"Secretion","level":2,"score":0.32710000872612},{"id":"https://openalex.org/C105565629","wikidata":"https://www.wikidata.org/wiki/Q1248292","display_name":"Gene prediction","level":4,"score":0.3208000063896179},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.3188999891281128},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.3021000027656555},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.2939000129699707},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.29170000553131104},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.2888000011444092},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.2888000011444092},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.28790000081062317},{"id":"https://openalex.org/C2993175405","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Bacterial protein","level":3,"score":0.27570000290870667},{"id":"https://openalex.org/C140051345","wikidata":"https://www.wikidata.org/wiki/Q7251501","display_name":"Protein subcellular localization prediction","level":3,"score":0.27300000190734863},{"id":"https://openalex.org/C19843653","wikidata":"https://www.wikidata.org/wiki/Q213907","display_name":"Model organism","level":3,"score":0.2727999985218048},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.26910001039505005},{"id":"https://openalex.org/C171897839","wikidata":"https://www.wikidata.org/wiki/Q417841","display_name":"Protein family","level":3,"score":0.2671999931335449},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2549000084400177}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058947","descriptor_name":"Bacterial Secretion Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1013397","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013397","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:41811851","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41811851","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:a44232973949459fa6fa29bcdd1d8fef","is_oa":true,"landing_page_url":"https://doaj.org/article/a44232973949459fa6fa29bcdd1d8fef","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 22, Iss 3, p e1013397 (2026)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:12998954","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12998954/","pdf_url":null,"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":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1013397","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013397","pdf_url":null,"source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3404856863","display_name":null,"funder_award_id":"62372392","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"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":40,"referenced_works":["https://openalex.org/W2130599662","https://openalex.org/W2150884987","https://openalex.org/W2157331557","https://openalex.org/W2170747616","https://openalex.org/W2308145610","https://openalex.org/W2559192784","https://openalex.org/W2737918457","https://openalex.org/W2768723560","https://openalex.org/W2790865507","https://openalex.org/W2899105530","https://openalex.org/W2921806522","https://openalex.org/W2936496314","https://openalex.org/W2963925437","https://openalex.org/W2986268970","https://openalex.org/W2995997429","https://openalex.org/W3005919599","https://openalex.org/W3028934069","https://openalex.org/W3088918273","https://openalex.org/W3134336635","https://openalex.org/W3137590121","https://openalex.org/W3146944767","https://openalex.org/W3205913984","https://openalex.org/W3207731563","https://openalex.org/W3216004349","https://openalex.org/W4205192056","https://openalex.org/W4205773061","https://openalex.org/W4210896031","https://openalex.org/W4317715444","https://openalex.org/W4318071656","https://openalex.org/W4327550249","https://openalex.org/W4381331222","https://openalex.org/W4388412041","https://openalex.org/W4390874353","https://openalex.org/W4391147477","https://openalex.org/W4404376000","https://openalex.org/W4404599510","https://openalex.org/W4406023177","https://openalex.org/W4406173145","https://openalex.org/W4406682058","https://openalex.org/W4410138743"],"related_works":[],"abstract_inverted_index":{"Identifying":[0],"effector":[1,45,72,93,155,192,214],"proteins":[2,94],"of":[3,20,44,104,153,212],"secretion":[4],"systems":[5],"in":[6,76,95,163],"Gram-negative":[7,96],"bacteria":[8],"is":[9],"crucial":[10],"for":[11,91,208],"deciphering":[12],"their":[13],"pathogenic":[14],"mechanisms":[15],"and":[16,25,160,167,182,198,204,216],"guiding":[17],"the":[18,42,49,107,143,186,209],"development":[19],"antimicrobial":[21],"strategies.":[22],"Extracting":[23],"evolutionary":[24],"sequence":[26,128],"features":[27,51,67,118],"using":[28,106],"pre-trained":[29,108],"protein":[30,46,73,109,193],"language":[31,110],"models":[32,142],"(PLMs)":[33],"has":[34],"emerged":[35],"as":[36],"an":[37,202],"effective":[38],"approach":[39],"to":[40,63,71,124,179],"improve":[41],"performance":[43,162],"prediction.":[47],"However,":[48],"high-dimensional":[50],"generated":[52],"by":[53],"PLMs":[54],"contain":[55],"extensive":[56],"general":[57],"biological":[58,219],"information,":[59],"making":[60],"it":[61,114,174],"difficult":[62],"focus":[64],"on":[65],"core":[66],"when":[68],"applied":[69],"directly":[70],"tasks,":[74],"which":[75],"turn":[77],"limits":[78],"prediction":[79,152],"performance.":[80],"In":[81],"this":[82],"study,":[83],"we":[84],"propose":[85],"MoCETSE,":[86],"a":[87,120,133],"deep":[88],"learning":[89],"model":[90,111,187],"predicting":[92],"bacteria.":[97],"Specifically,":[98],"MoCETSE":[99,140,157,200],"first":[100],"extracts":[101],"contextual":[102],"representations":[103],"sequences":[105],"ESM-1b.":[112],"Subsequently,":[113],"refines":[115],"key":[116,218],"functional":[117],"via":[119],"target":[121],"preprocessing":[122],"network":[123],"construct":[125],"more":[126],"expressive":[127],"representations.":[129],"Finally,":[130],"integrated":[131],"with":[132],"transformer":[134],"module":[135],"incorporating":[136],"relative":[137,144],"positional":[138],"encoding,":[139],"explicitly":[141],"spatial":[145],"relationships":[146],"between":[147],"residues,":[148],"enabling":[149],"highly":[150],"accurate":[151,210],"secreted":[154],"proteins.":[156],"exhibits":[158],"excellent":[159],"robust":[161,205],"both":[164],"five-fold":[165],"cross-validation":[166],"independent":[168],"testing.":[169],"Benchmark":[170],"results":[171],"demonstrate":[172],"that":[173],"maintains":[175],"strong":[176],"competitiveness":[177],"compared":[178],"existing":[180],"binary":[181],"multi-class":[183],"predictors.":[184],"Additionally,":[185],"can":[188],"effectively":[189],"perform":[190],"genome-wide":[191],"prediction,":[194],"showing":[195],"outstanding":[196],"specificity":[197],"reliability.":[199],"provides":[201],"efficient":[203],"computational":[206],"framework":[207],"identification":[211],"bacterial":[213],"substrates":[215],"offers":[217],"insights.":[220]},"counts_by_year":[],"updated_date":"2026-06-26T08:34:08.712188","created_date":"2026-03-13T00:00:00"}