{"id":"https://openalex.org/W4407190104","doi":"https://doi.org/10.3390/info16020109","title":"Automated Fungal Identification with Deep Learning on Time-Lapse Images","display_name":"Automated Fungal Identification with Deep Learning on Time-Lapse Images","publication_year":2025,"publication_date":"2025-02-05","ids":{"openalex":"https://openalex.org/W4407190104","doi":"https://doi.org/10.3390/info16020109"},"language":"en","primary_location":{"id":"doi:10.3390/info16020109","is_oa":true,"landing_page_url":"https://doi.org/10.3390/info16020109","pdf_url":"https://www.mdpi.com/2078-2489/16/2/109/pdf?version=1739354609","source":{"id":"https://openalex.org/S4210219776","display_name":"Information","issn_l":"2078-2489","issn":["2078-2489"],"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":"Information","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/2078-2489/16/2/109/pdf?version=1739354609","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5019647401","display_name":"Marjan Mansourvar","orcid":"https://orcid.org/0000-0001-6492-7858"},"institutions":[{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["DK"],"is_corresponding":true,"raw_author_name":"Marjan Mansourvar","raw_affiliation_strings":["Department of Biotechnology and Biomedicine (DTU Bioengineering), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark"],"raw_orcid":"https://orcid.org/0000-0001-6492-7858","affiliations":[{"raw_affiliation_string":"Department of Biotechnology and Biomedicine (DTU Bioengineering), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark","institution_ids":["https://openalex.org/I96673099"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5116169057","display_name":"Karol Rafal Charylo","orcid":null},"institutions":[{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Karol Rafal Charylo","raw_affiliation_strings":["Department of Electrical and Photonics Engineering (DTU Electro), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical and Photonics Engineering (DTU Electro), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark","institution_ids":["https://openalex.org/I96673099"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078562966","display_name":"Rasmus John Normand Frandsen","orcid":"https://orcid.org/0000-0002-3799-6062"},"institutions":[{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Rasmus John Normand Frandsen","raw_affiliation_strings":["Department of Biotechnology and Biomedicine (DTU Bioengineering), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark"],"raw_orcid":"https://orcid.org/0000-0002-3799-6062","affiliations":[{"raw_affiliation_string":"Department of Biotechnology and Biomedicine (DTU Bioengineering), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark","institution_ids":["https://openalex.org/I96673099"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072835667","display_name":"Steen Smidth Brewer","orcid":null},"institutions":[{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"Steen Smidth Brewer","raw_affiliation_strings":["Department of Biotechnology and Biomedicine (DTU Bioengineering), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biotechnology and Biomedicine (DTU Bioengineering), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark","institution_ids":["https://openalex.org/I96673099"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5017604499","display_name":"Jakob Bl\u00e6sbjerg Hoof","orcid":"https://orcid.org/0000-0002-7650-9300"},"institutions":[{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]}],"countries":["DK"],"is_corresponding":true,"raw_author_name":"Jakob Bl\u00e6sbjerg Hoof","raw_affiliation_strings":["Department of Biotechnology and Biomedicine (DTU Bioengineering), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark"],"raw_orcid":"https://orcid.org/0000-0002-7650-9300","affiliations":[{"raw_affiliation_string":"Department of Biotechnology and Biomedicine (DTU Bioengineering), Technical University of Denmark, S\u00f8ltofts Plads, 2800 Kongens Lyngby, Denmark","institution_ids":["https://openalex.org/I96673099"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5017604499","https://openalex.org/A5019647401"],"corresponding_institution_ids":["https://openalex.org/I96673099"],"apc_list":{"value":1600,"currency":"CHF","value_usd":1782},"apc_paid":{"value":1600,"currency":"CHF","value_usd":1782},"fwci":7.9295,"has_fulltext":true,"cited_by_count":13,"citation_normalized_percentile":{"value":0.98150494,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"16","issue":"2","first_page":"109","last_page":"109"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10825","display_name":"Plant Pathogens and Fungal Diseases","score":0.9983999729156494,"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":0.9983999729156494,"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/T10616","display_name":"Smart Agriculture and AI","score":0.9803000092506409,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.972100019454956,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/artificial-intelligence","display_name":"Artificial intelligence","score":0.7066998481750488},{"id":"https://openalex.org/keywords/workload","display_name":"Workload","score":0.5930307507514954},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.5761498212814331},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.5710470080375671},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5478335618972778},{"id":"https://openalex.org/keywords/automation","display_name":"Automation","score":0.5131567120552063},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.4983482360839844},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2589431703090668},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.21846282482147217},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.14017653465270996}],"concepts":[{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.7066998481750488},{"id":"https://openalex.org/C2778476105","wikidata":"https://www.wikidata.org/wiki/Q628539","display_name":"Workload","level":2,"score":0.5930307507514954},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5761498212814331},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.5710470080375671},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5478335618972778},{"id":"https://openalex.org/C115901376","wikidata":"https://www.wikidata.org/wiki/Q184199","display_name":"Automation","level":2,"score":0.5131567120552063},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.4983482360839844},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2589431703090668},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.21846282482147217},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.14017653465270996},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.3390/info16020109","is_oa":true,"landing_page_url":"https://doi.org/10.3390/info16020109","pdf_url":"https://www.mdpi.com/2078-2489/16/2/109/pdf?version=1739354609","source":{"id":"https://openalex.org/S4210219776","display_name":"Information","issn_l":"2078-2489","issn":["2078-2489"],"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":"Information","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:e7fa1130acad42449646abc31ec5dcfe","is_oa":false,"landing_page_url":"https://doaj.org/article/e7fa1130acad42449646abc31ec5dcfe","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Information, Vol 16, Iss 2, p 109 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3390/info16020109","is_oa":true,"landing_page_url":"https://doi.org/10.3390/info16020109","pdf_url":"https://www.mdpi.com/2078-2489/16/2/109/pdf?version=1739354609","source":{"id":"https://openalex.org/S4210219776","display_name":"Information","issn_l":"2078-2489","issn":["2078-2489"],"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":"Information","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4399999976158142,"id":"https://metadata.un.org/sdg/2","display_name":"Zero hunger"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4407190104.pdf","grobid_xml":"https://content.openalex.org/works/W4407190104.grobid-xml"},"referenced_works_count":33,"referenced_works":["https://openalex.org/W1972479547","https://openalex.org/W2278581175","https://openalex.org/W2887298128","https://openalex.org/W3099615790","https://openalex.org/W3111977908","https://openalex.org/W3127433786","https://openalex.org/W3130851577","https://openalex.org/W3138781819","https://openalex.org/W3140854437","https://openalex.org/W3171606717","https://openalex.org/W3182106307","https://openalex.org/W3193830270","https://openalex.org/W3195765786","https://openalex.org/W3211729376","https://openalex.org/W3214880083","https://openalex.org/W4205486683","https://openalex.org/W4206568903","https://openalex.org/W4220930654","https://openalex.org/W4225427529","https://openalex.org/W4313530692","https://openalex.org/W4318703927","https://openalex.org/W4321230297","https://openalex.org/W4366779562","https://openalex.org/W4385391093","https://openalex.org/W4386561820","https://openalex.org/W4389263612","https://openalex.org/W4392207614","https://openalex.org/W4392741075","https://openalex.org/W4393179974","https://openalex.org/W4394818989","https://openalex.org/W4404360774","https://openalex.org/W4404725027","https://openalex.org/W6797391299"],"related_works":["https://openalex.org/W2000785801","https://openalex.org/W986318368","https://openalex.org/W2384410913","https://openalex.org/W2352878646","https://openalex.org/W2004734601","https://openalex.org/W2287264064","https://openalex.org/W2130149817","https://openalex.org/W4309067354","https://openalex.org/W2069805764","https://openalex.org/W4380075502"],"abstract_inverted_index":{"The":[0,86,108],"identification":[1,21,164],"of":[2,186,191,200,232],"species":[3,50,74,104],"within":[4],"filamentous":[5],"fungi":[6,91],"is":[7],"crucial":[8],"in":[9,51,93,134,235],"various":[10],"fields":[11],"such":[12],"as":[13],"agriculture,":[14],"environmental":[15],"monitoring,":[16],"and":[17,34,40,64,116,127,150,152,174,206,213],"medical":[18],"mycology.":[19],"Traditional":[20],"methods":[22],"based":[23],"on":[24,37],"morphology":[25],"have":[26],"a":[27,52,113,204,229],"low":[28],"demand":[29],"for":[30,148,157,209,221],"advanced":[31,122],"equipment":[32],"usage":[33],"heavily":[35],"depend":[36],"manual":[38],"observation":[39],"expertise.":[41],"However,":[42],"this":[43,67],"approach":[44,160],"may":[45],"struggle":[46],"to":[47,55,83,197],"differentiate":[48],"between":[49],"genus":[53],"due":[54],"their":[56,132,236],"potential":[57],"visual":[58],"similarities,":[59],"making":[60],"the":[61,94,162,171,177,179,183,189,198],"process":[62,165],"time-consuming":[63],"subjective.":[65],"In":[66],"study,":[68],"we":[69],"present":[70],"an":[71],"AI-based":[72],"fungal":[73,137,163,201,211],"recognition":[75],"model":[76],"that":[77,227],"utilizes":[78],"deep":[79,123],"learning":[80,124],"techniques":[81],"applied":[82],"time-lapse":[84],"images.":[85],"training":[87,114,149],"dataset,":[88],"derived":[89],"from":[90,105,142],"strains":[92],"IBT":[95],"Culture":[96],"Collection,":[97],"comprised":[98],"26,451":[99],"high-resolution":[100],"images":[101,141],"representing":[102],"110":[103],"35":[106],"genera.":[107],"dataset":[109],"was":[110],"divided":[111],"into":[112],"set":[115],"validation":[117],"subsets.":[118],"We":[119],"implemented":[120],"three":[121],"architectures\u2014ResNet50,":[125],"DenseNet-121,":[126],"Vision":[128,180],"Transformer":[129,181],"(ViT)\u2014to":[130],"assess":[131],"effectiveness":[133,190],"accurately":[135],"classifying":[136],"species.":[138],"By":[139],"utilizing":[140],"early":[143],"growth":[144,212],"stages":[145,154],"(days":[146,155],"2\u20133.5)":[147],"testing":[151],"later":[153],"4\u20137)":[156],"validation,":[158],"our":[159,192],"shortens":[161],"by":[166],"2\u20133":[167],"days,":[168],"significantly":[169],"reducing":[170],"associated":[172],"workload":[173],"costs.":[175],"Among":[176],"models,":[178],"achieved":[182],"highest":[184],"accuracy":[185],"92.6%,":[187],"demonstrating":[188],"method.":[193],"This":[194],"work":[195],"contributes":[196],"automation":[199],"identification,":[202],"providing":[203],"reliable":[205],"efficient":[207],"solution":[208],"monitoring":[210],"diversity":[214],"over":[215],"time,":[216],"which":[217],"would":[218],"be":[219],"useful":[220],"culture":[222],"collections":[223],"or":[224],"other":[225],"institutions":[226],"handle":[228],"large":[230],"number":[231],"new":[233],"isolates":[234],"daily":[237],"work.":[238]},"counts_by_year":[{"year":2026,"cited_by_count":7},{"year":2025,"cited_by_count":6}],"updated_date":"2026-07-26T07:53:14.480251","created_date":"2025-10-10T00:00:00"}
