{"id":"https://openalex.org/W4408052760","doi":"https://doi.org/10.3390/computers14030085","title":"FungiLT: A Deep Learning Approach for Species-Level Taxonomic Classification of Fungal ITS Sequences","display_name":"FungiLT: A Deep Learning Approach for Species-Level Taxonomic Classification of Fungal ITS Sequences","publication_year":2025,"publication_date":"2025-02-28","ids":{"openalex":"https://openalex.org/W4408052760","doi":"https://doi.org/10.3390/computers14030085"},"language":"en","primary_location":{"id":"doi:10.3390/computers14030085","is_oa":true,"landing_page_url":"https://doi.org/10.3390/computers14030085","pdf_url":"https://www.mdpi.com/2073-431X/14/3/85/pdf?version=1740732865","source":{"id":"https://openalex.org/S4210228075","display_name":"Computers","issn_l":"2073-431X","issn":["2073-431X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computers","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/2073-431X/14/3/85/pdf?version=1740732865","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5110936383","display_name":"Kai Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I111599522","display_name":"Jiangnan University","ror":"https://ror.org/04mkzax54","country_code":"CN","type":"education","lineage":["https://openalex.org/I111599522"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Kai Liu","raw_affiliation_strings":["National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","School of Artificial Intelligence and Computer Science, Jiangnan University, Wuxi 214122, China"],"affiliations":[{"raw_affiliation_string":"National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]},{"raw_affiliation_string":"School of Artificial Intelligence and Computer Science, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085275315","display_name":"Hongyuan Zhao","orcid":"https://orcid.org/0000-0003-3567-0023"},"institutions":[{"id":"https://openalex.org/I111599522","display_name":"Jiangnan University","ror":"https://ror.org/04mkzax54","country_code":"CN","type":"education","lineage":["https://openalex.org/I111599522"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hongyuan Zhao","raw_affiliation_strings":["National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","School of Artificial Intelligence and Computer Science, Jiangnan University, Wuxi 214122, China"],"affiliations":[{"raw_affiliation_string":"National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]},{"raw_affiliation_string":"School of Artificial Intelligence and Computer Science, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024996526","display_name":"Dongliang Ren","orcid":null},"institutions":[{"id":"https://openalex.org/I111599522","display_name":"Jiangnan University","ror":"https://ror.org/04mkzax54","country_code":"CN","type":"education","lineage":["https://openalex.org/I111599522"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dongliang Ren","raw_affiliation_strings":["National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China"],"affiliations":[{"raw_affiliation_string":"National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007155198","display_name":"Dongna Ma","orcid":"https://orcid.org/0000-0001-6796-956X"},"institutions":[{"id":"https://openalex.org/I111599522","display_name":"Jiangnan University","ror":"https://ror.org/04mkzax54","country_code":"CN","type":"education","lineage":["https://openalex.org/I111599522"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dongna Ma","raw_affiliation_strings":["National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China"],"affiliations":[{"raw_affiliation_string":"National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108300507","display_name":"Shuangping Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I111599522","display_name":"Jiangnan University","ror":"https://ror.org/04mkzax54","country_code":"CN","type":"education","lineage":["https://openalex.org/I111599522"]},{"id":"https://openalex.org/I192209268","display_name":"Shaoxing University","ror":"https://ror.org/0435tej63","country_code":"CN","type":"education","lineage":["https://openalex.org/I192209268"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shuangping Liu","raw_affiliation_strings":["Jiangnan University (Shaoxing) Industrial Technology Research Institute, Shaoxing 312000, China","National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","School of Artificial Intelligence and Computer Science, Jiangnan University, Wuxi 214122, China"],"affiliations":[{"raw_affiliation_string":"Jiangnan University (Shaoxing) Industrial Technology Research Institute, Shaoxing 312000, China","institution_ids":["https://openalex.org/I192209268","https://openalex.org/I111599522"]},{"raw_affiliation_string":"National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]},{"raw_affiliation_string":"School of Artificial Intelligence and Computer Science, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012679026","display_name":"Jian Mao","orcid":"https://orcid.org/0000-0002-3221-2492"},"institutions":[{"id":"https://openalex.org/I111599522","display_name":"Jiangnan University","ror":"https://ror.org/04mkzax54","country_code":"CN","type":"education","lineage":["https://openalex.org/I111599522"]},{"id":"https://openalex.org/I192209268","display_name":"Shaoxing University","ror":"https://ror.org/0435tej63","country_code":"CN","type":"education","lineage":["https://openalex.org/I192209268"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jian Mao","raw_affiliation_strings":["Jiangnan University (Shaoxing) Industrial Technology Research Institute, Shaoxing 312000, China","National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China"],"affiliations":[{"raw_affiliation_string":"Jiangnan University (Shaoxing) Industrial Technology Research Institute, Shaoxing 312000, China","institution_ids":["https://openalex.org/I192209268","https://openalex.org/I111599522"]},{"raw_affiliation_string":"National Engineering Research Center of Cereal Fermentation and Food Biomanufacturing, School of Food Science and Technology, Jiangnan University, Wuxi 214122, China","institution_ids":["https://openalex.org/I111599522"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5012679026","https://openalex.org/A5108300507"],"corresponding_institution_ids":["https://openalex.org/I111599522","https://openalex.org/I192209268"],"apc_list":{"value":1600,"currency":"CHF","value_usd":1732},"apc_paid":{"value":1600,"currency":"CHF","value_usd":1732},"fwci":4.6107,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.93555798,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"14","issue":"3","first_page":"85","last_page":"85"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10825","display_name":"Plant Pathogens and Fungal Diseases","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10825","display_name":"Plant Pathogens and Fungal Diseases","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1307","display_name":"Cell 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/T10451","display_name":"Mycorrhizal Fungi and Plant Interactions","score":0.9970999956130981,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9932000041007996,"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/biological-classification","display_name":"Biological classification","score":0.5541478991508484},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4683710038661957},{"id":"https://openalex.org/keywords/taxonomy","display_name":"Taxonomy (biology)","score":0.4508313238620758},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.4097733497619629},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.40189456939697266},{"id":"https://openalex.org/keywords/zoology","display_name":"Zoology","score":0.3544579744338989},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.24008315801620483}],"concepts":[{"id":"https://openalex.org/C48702757","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Biological classification","level":2,"score":0.5541478991508484},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4683710038661957},{"id":"https://openalex.org/C58642233","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Taxonomy (biology)","level":2,"score":0.4508313238620758},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4097733497619629},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.40189456939697266},{"id":"https://openalex.org/C90856448","wikidata":"https://www.wikidata.org/wiki/Q431","display_name":"Zoology","level":1,"score":0.3544579744338989},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.24008315801620483}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.3390/computers14030085","is_oa":true,"landing_page_url":"https://doi.org/10.3390/computers14030085","pdf_url":"https://www.mdpi.com/2073-431X/14/3/85/pdf?version=1740732865","source":{"id":"https://openalex.org/S4210228075","display_name":"Computers","issn_l":"2073-431X","issn":["2073-431X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computers","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:6d12d696f7a549a1a1f96ab7b8d675b1","is_oa":true,"landing_page_url":"https://doaj.org/article/6d12d696f7a549a1a1f96ab7b8d675b1","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Computers, Vol 14, Iss 3, p 85 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3390/computers14030085","is_oa":true,"landing_page_url":"https://doi.org/10.3390/computers14030085","pdf_url":"https://www.mdpi.com/2073-431X/14/3/85/pdf?version=1740732865","source":{"id":"https://openalex.org/S4210228075","display_name":"Computers","issn_l":"2073-431X","issn":["2073-431X"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Computers","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4408052760.pdf"},"referenced_works_count":53,"referenced_works":["https://openalex.org/W1616646493","https://openalex.org/W2110375946","https://openalex.org/W2142678478","https://openalex.org/W2260894375","https://openalex.org/W2433305978","https://openalex.org/W2536767824","https://openalex.org/W2740085246","https://openalex.org/W2757805629","https://openalex.org/W2757815815","https://openalex.org/W2766648240","https://openalex.org/W2803566787","https://openalex.org/W2807194798","https://openalex.org/W2886687368","https://openalex.org/W2900678021","https://openalex.org/W2942635499","https://openalex.org/W2952663747","https://openalex.org/W2954466133","https://openalex.org/W2963276645","https://openalex.org/W2985711816","https://openalex.org/W3007075806","https://openalex.org/W3012276919","https://openalex.org/W3016863796","https://openalex.org/W3024376490","https://openalex.org/W3041701188","https://openalex.org/W3127238141","https://openalex.org/W3137279194","https://openalex.org/W3153990350","https://openalex.org/W3155739706","https://openalex.org/W3159814888","https://openalex.org/W3185619636","https://openalex.org/W3196737052","https://openalex.org/W3206936340","https://openalex.org/W4200090677","https://openalex.org/W4224224200","https://openalex.org/W4281719061","https://openalex.org/W4287147429","https://openalex.org/W4323046456","https://openalex.org/W4323667223","https://openalex.org/W4353066319","https://openalex.org/W4360618970","https://openalex.org/W4385278816","https://openalex.org/W4386193794","https://openalex.org/W4387393064","https://openalex.org/W4387708457","https://openalex.org/W4388513748","https://openalex.org/W4388637778","https://openalex.org/W4391682965","https://openalex.org/W4392240693","https://openalex.org/W4392859503","https://openalex.org/W4394728975","https://openalex.org/W4396219636","https://openalex.org/W6729138062","https://openalex.org/W6759255826"],"related_works":["https://openalex.org/W1977424337","https://openalex.org/W2338074085","https://openalex.org/W2031132219","https://openalex.org/W2736560180","https://openalex.org/W2045788357","https://openalex.org/W2342521350","https://openalex.org/W4387094765","https://openalex.org/W1541197328","https://openalex.org/W2011185749","https://openalex.org/W4297828714"],"abstract_inverted_index":{"With":[0],"the":[1,136],"explosive":[2],"growth":[3],"of":[4,129],"sequencing":[5],"data,":[6],"rapidly":[7],"and":[8,11,36,48,100,135,155,163,168],"accurately":[9],"classifying":[10],"identifying":[12],"species":[13,34,46,82,116,147,171],"has":[14],"become":[15],"a":[16,78,90,105,111,125,152],"critical":[17],"challenge":[18],"in":[19,145,173],"amplicon":[20,174],"analysis":[21,175],"research.":[22,176],"The":[23],"internal":[24],"transcribed":[25],"spacer":[26],"(ITS)":[27],"region":[28],"is":[29,96,117],"widely":[30],"used":[31],"for":[32,84,158,170],"fungal":[33,45,74,85,91,115,160],"classification":[35,50,92,127,161],"identification.":[37],"However,":[38],"most":[39],"existing":[40],"ITS":[41,69,121,146],"databases":[42,65],"cover":[43],"limited":[44],"diversity,":[47],"current":[49],"methods":[51],"struggle":[52],"to":[53,66,132],"efficiently":[54],"handle":[55],"such":[56],"large-scale":[57,159],"data.":[58],"This":[59,149],"study":[60,150],"integrates":[61],"multiple":[62],"publicly":[63],"available":[64],"construct":[67],"an":[68],"sequence":[70],"database":[71],"encompassing":[72],"93,975":[73],"species,":[75],"making":[76],"it":[77,123],"resource":[79],"with":[80],"broader":[81],"diversity":[83],"taxonomy.":[86],"In":[87],"this":[88],"study,":[89],"model":[93,139],"named":[94],"FungiLT":[95,141],"proposed,":[97],"integrating":[98],"Transformer":[99],"BiLSTM":[101],"architectures":[102],"while":[103],"incorporating":[104],"dual-channel":[106],"feature":[107],"fusion":[108],"mechanism.":[109],"On":[110],"dataset":[112],"where":[113],"each":[114],"represented":[118],"by":[119],"100":[120],"sequences,":[122],"achieves":[124],"species-level":[126],"accuracy":[128],"98.77%.":[130],"Compared":[131],"BLAST,":[133],"QIIME2,":[134],"deep":[137],"learning":[138],"CNN_FunBar,":[140],"demonstrates":[142],"significant":[143],"advantages":[144],"classification.":[148],"provides":[151],"more":[153],"efficient":[154],"accurate":[156],"solution":[157],"tasks":[162],"offers":[164],"new":[165],"technical":[166],"support":[167],"insights":[169],"annotation":[172]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2025-10-10T00:00:00"}
