{"id":"https://openalex.org/W3027581176","doi":"https://doi.org/10.1093/bioinformatics/btaa513","title":"Parasitologist-level classification of apicomplexan parasites and host cell with deep cycle transfer learning (DCTL)","display_name":"Parasitologist-level classification of apicomplexan parasites and host cell with deep cycle transfer learning (DCTL)","publication_year":2020,"publication_date":"2020-05-11","ids":{"openalex":"https://openalex.org/W3027581176","doi":"https://doi.org/10.1093/bioinformatics/btaa513","mag":"3027581176","pmid":"https://pubmed.ncbi.nlm.nih.gov/32413103"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa513","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa513","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/16/4498/33965441/btaa513.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/36/16/4498/33965441/btaa513.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100444231","display_name":"Sen Li","orcid":"https://orcid.org/0000-0001-7747-4253"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Sen Li","raw_affiliation_strings":["College of Science, Harbin Institute of Technology , Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science, Harbin Institute of Technology , Shenzhen, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102013361","display_name":"Qi Yang","orcid":"https://orcid.org/0000-0001-9607-9881"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qi Yang","raw_affiliation_strings":["College of Science, Harbin Institute of Technology , Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science, Harbin Institute of Technology , Shenzhen, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100650436","display_name":"Hao Jiang","orcid":"https://orcid.org/0000-0002-8901-0760"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hao Jiang","raw_affiliation_strings":["College of Science, Harbin Institute of Technology , Shenzhen, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Science, Harbin Institute of Technology , Shenzhen, China","institution_ids":["https://openalex.org/I204983213"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013300491","display_name":"Jes\u00fas A. Cort\u00e9s\u2010Vecino","orcid":"https://orcid.org/0000-0003-2641-604X"},"institutions":[{"id":"https://openalex.org/I36243813","display_name":"Universidad Nacional de Colombia","ror":"https://ror.org/059yx9a68","country_code":"CO","type":"education","lineage":["https://openalex.org/I36243813"]}],"countries":["CO"],"is_corresponding":false,"raw_author_name":"Jes\u00fas A Cort\u00e9s-Vecino","raw_affiliation_strings":["Laboratorio de Parasitolog\u00eda Veterinaria, Departamento de Salud Animal, Universidad Nacional de Colombia-Sede Bogot\u00e1 , Bogot\u00e1, Colombia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratorio de Parasitolog\u00eda Veterinaria, Departamento de Salud Animal, Universidad Nacional de Colombia-Sede Bogot\u00e1 , Bogot\u00e1, Colombia","institution_ids":["https://openalex.org/I36243813"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100354675","display_name":"Yang Zhang","orcid":"https://orcid.org/0000-0002-3503-5161"},"institutions":[{"id":"https://openalex.org/I204983213","display_name":"Harbin Institute of Technology","ror":"https://ror.org/01yqg2h08","country_code":"CN","type":"education","lineage":["https://openalex.org/I204983213"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yang Zhang","raw_affiliation_strings":["College of Science, Harbin Institute of Technology , Shenzhen, China"],"raw_orcid":"https://orcid.org/0000-0002-3503-5161","affiliations":[{"raw_affiliation_string":"College of Science, Harbin Institute of Technology , Shenzhen, China","institution_ids":["https://openalex.org/I204983213"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100354675"],"corresponding_institution_ids":["https://openalex.org/I204983213"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.1083,"has_fulltext":false,"cited_by_count":33,"citation_normalized_percentile":{"value":0.89294429,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"36","issue":"16","first_page":"4498","last_page":"4505"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12874","display_name":"Digital Imaging for Blood Diseases","score":0.8970000147819519,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T12874","display_name":"Digital Imaging for Blood Diseases","score":0.8970000147819519,"subfield":{"id":"https://openalex.org/subfields/1707","display_name":"Computer Vision and Pattern Recognition"},"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/T10862","display_name":"AI in cancer detection","score":0.022600000724196434,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"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/T11155","display_name":"Toxoplasma gondii Research Studies","score":0.016599999740719795,"subfield":{"id":"https://openalex.org/subfields/2405","display_name":"Parasitology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/babesia","display_name":"Babesia","score":0.7643043994903564},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5401446223258972},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5248444080352783},{"id":"https://openalex.org/keywords/plasmodium","display_name":"Plasmodium (life cycle)","score":0.510438859462738},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4972973167896271},{"id":"https://openalex.org/keywords/transfer-of-learning","display_name":"Transfer of learning","score":0.4409739673137665},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.4319082498550415},{"id":"https://openalex.org/keywords/parasite-hosting","display_name":"Parasite hosting","score":0.2650154232978821},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.2082773745059967}],"concepts":[{"id":"https://openalex.org/C2780581805","wikidata":"https://www.wikidata.org/wiki/Q797656","display_name":"Babesia","level":2,"score":0.7643043994903564},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5401446223258972},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5248444080352783},{"id":"https://openalex.org/C2778675580","wikidata":"https://www.wikidata.org/wiki/Q614956","display_name":"Plasmodium (life cycle)","level":3,"score":0.510438859462738},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4972973167896271},{"id":"https://openalex.org/C150899416","wikidata":"https://www.wikidata.org/wiki/Q1820378","display_name":"Transfer of learning","level":2,"score":0.4409739673137665},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.4319082498550415},{"id":"https://openalex.org/C71928629","wikidata":"https://www.wikidata.org/wiki/Q804206","display_name":"Parasite hosting","level":2,"score":0.2650154232978821},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.2082773745059967},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","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":"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":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008853","descriptor_name":"Microscopy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010271","descriptor_name":"Parasites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010271","descriptor_name":"Parasites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010271","descriptor_name":"Parasites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010961","descriptor_name":"Plasmodium","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010961","descriptor_name":"Plasmodium","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010961","descriptor_name":"Plasmodium","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014122","descriptor_name":"Toxoplasma","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014122","descriptor_name":"Toxoplasma","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014122","descriptor_name":"Toxoplasma","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btaa513","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa513","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/16/4498/33965441/btaa513.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32413103","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32413103","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaa513","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa513","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/16/4498/33965441/btaa513.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.5199999809265137}],"awards":[{"id":"https://openalex.org/G5703879733","display_name":null,"funder_award_id":"JCYJ20180306172131515","funder_id":"https://openalex.org/F4320316880","funder_display_name":"Natural Science Foundation of Shenzhen City"}],"funders":[{"id":"https://openalex.org/F4320316880","display_name":"Natural Science Foundation of Shenzhen City","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":39,"referenced_works":["https://openalex.org/W1686810756","https://openalex.org/W1729017034","https://openalex.org/W2004226906","https://openalex.org/W2020755315","https://openalex.org/W2038982445","https://openalex.org/W2099006710","https://openalex.org/W2112941164","https://openalex.org/W2115664739","https://openalex.org/W2183341477","https://openalex.org/W2185132500","https://openalex.org/W2187089797","https://openalex.org/W2194775991","https://openalex.org/W2413206142","https://openalex.org/W2441043810","https://openalex.org/W2581082771","https://openalex.org/W2592929672","https://openalex.org/W2606416966","https://openalex.org/W2606637963","https://openalex.org/W2756432215","https://openalex.org/W2771918349","https://openalex.org/W2788633781","https://openalex.org/W2795427963","https://openalex.org/W2797749376","https://openalex.org/W2810970820","https://openalex.org/W2885688423","https://openalex.org/W2886281300","https://openalex.org/W2891261615","https://openalex.org/W2903108490","https://openalex.org/W2932012837","https://openalex.org/W2946901414","https://openalex.org/W2955214356","https://openalex.org/W2956228567","https://openalex.org/W2956351079","https://openalex.org/W2962835968","https://openalex.org/W4211025802","https://openalex.org/W4211090760","https://openalex.org/W4211140781","https://openalex.org/W4245629985","https://openalex.org/W6637373629"],"related_works":["https://openalex.org/W2731899572","https://openalex.org/W3215138031","https://openalex.org/W3009238340","https://openalex.org/W4321369474","https://openalex.org/W4360585206","https://openalex.org/W4206357785","https://openalex.org/W4281381188","https://openalex.org/W3192840557","https://openalex.org/W2951211570","https://openalex.org/W4285208911"],"abstract_inverted_index":{"MOTIVATION:":[0],"Apicomplexan":[1],"parasites,":[2,27,77],"including":[3],"Toxoplasma,":[4],"Plasmodium":[5,96],"and":[6,16,35,100,116,127,152,162,189,205],"Babesia,":[7],"are":[8,214],"important":[9],"pathogens":[10],"that":[11,92],"affect":[12],"billions":[13],"of":[14,50,90,133,146,154,160,168],"humans":[15],"animals":[17],"worldwide.":[18],"Usually":[19],"a":[20,42,130],"microscope":[21],"is":[22,30,49,59,86,94,97,102,176],"used":[23],"to":[24,32,38,45,74,108,180,185],"detect":[25,46,75],"these":[26,47],"but":[28],"it":[29,190],"difficult":[31],"use":[33],"microscopes":[34],"clinician":[36],"requires":[37],"be":[39],"trained.":[40],"Finding":[41],"cost-effective":[43],"solution":[44],"parasites":[48,172],"particular":[51],"interest":[52],"in":[53,56],"developing":[54,195],"countries,":[55],"which":[57],"infection":[58],"more":[60],"common.":[61],"RESULTS:":[62],"Here,":[63],"we":[64,138],"propose":[65],"an":[66,157,163],"alternative":[67],"method,":[68],"deep":[69,80],"cycle":[70,131],"transfer":[71,132],"learning":[72],"(DCTL),":[73],"apicomplexan":[76,186],"by":[78],"utilizing":[79],"learning-based":[81],"microscopic":[82,111,144],"image":[83,198],"analysis.":[84],"DCTL":[85,140],"based":[87],"on":[88,141],"observations":[89],"parasitologists":[91,184],"Toxoplasma":[93],"banana-shaped,":[95],"generally":[98],"ring-shaped,":[99],"Babesia":[101,115],"typically":[103],"pear-shaped.":[104],"Our":[105],"approach":[106],"aims":[107],"connect":[109],"those":[110],"objects":[112],"(Toxoplasma,":[113],"Plasmodium,":[114],"erythrocyte)":[117],"with":[118,156],"their":[119],"morphological":[120],"similar":[121],"macro":[122],"ones":[123],"(banana,":[124],"ring,":[125],"pear":[126],"apple)":[128],"through":[129],"knowledge.":[134],"In":[135],"the":[136,166,177],"experiments,":[137],"conduct":[139],"24":[142],"358":[143],"images":[145],"parasites.":[147],"Results":[148],"demonstrate":[149],"high":[150],"accuracy":[151,159],"effectiveness":[153],"DCTL,":[155],"average":[158],"95.7%":[161],"area":[164],"under":[165],"curve":[167],"0.995":[169],"for":[170,194],"all":[171],"types.":[173],"This":[174],"article":[175],"first":[178],"work":[179],"apply":[181],"knowledge":[182],"from":[183],"parasite":[187],"recognition,":[188],"opens":[191],"new":[192],"ground":[193],"AI-powered":[196],"microscopy":[197],"diagnostic":[199],"systems.":[200],"AVAILABILITY":[201],"AND":[202],"IMPLEMENTATION:":[203],"Code":[204],"dataset":[206],"available":[207,215],"at":[208,216],"https://github.com/senli2018/DCTL.":[209],"SUPPLEMENTARY":[210],"INFORMATION:":[211],"Supplementary":[212],"data":[213],"Bioinformatics":[217],"online.":[218]},"counts_by_year":[{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":8},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":2}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
