{"id":"https://openalex.org/W4387450925","doi":"https://doi.org/10.3390/s23198337","title":"Hybrid Approach to Colony-Forming Unit Counting Problem Using Multi-Loss U-Net Reformulation","display_name":"Hybrid Approach to Colony-Forming Unit Counting Problem Using Multi-Loss U-Net Reformulation","publication_year":2023,"publication_date":"2023-10-09","ids":{"openalex":"https://openalex.org/W4387450925","doi":"https://doi.org/10.3390/s23198337","pmid":"https://pubmed.ncbi.nlm.nih.gov/37837169"},"language":"en","primary_location":{"id":"doi:10.3390/s23198337","is_oa":true,"landing_page_url":"https://doi.org/10.3390/s23198337","pdf_url":"https://www.mdpi.com/1424-8220/23/19/8337/pdf?version=1696856559","source":{"id":"https://openalex.org/S101949793","display_name":"Sensors","issn_l":"1424-8220","issn":["1424-8220"],"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":"Sensors","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/1424-8220/23/19/8337/pdf?version=1696856559","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5005357018","display_name":"Vilen Jumutc","orcid":"https://orcid.org/0000-0003-4771-2411"},"institutions":[{"id":"https://openalex.org/I201787326","display_name":"Riga Technical University","ror":"https://ror.org/00twb6c09","country_code":"LV","type":"education","lineage":["https://openalex.org/I201787326"]}],"countries":["LV"],"is_corresponding":false,"raw_author_name":"Vilen Jumutc","raw_affiliation_strings":["Institute of Smart Computer Technologies, Riga Technical University, LV-1048 Riga, Latvia"],"raw_orcid":"https://orcid.org/0000-0003-4771-2411","affiliations":[{"raw_affiliation_string":"Institute of Smart Computer Technologies, Riga Technical University, LV-1048 Riga, Latvia","institution_ids":["https://openalex.org/I201787326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060252834","display_name":"Artjoms Supo\u0146enkovs","orcid":"https://orcid.org/0000-0002-1463-8166"},"institutions":[{"id":"https://openalex.org/I201787326","display_name":"Riga Technical University","ror":"https://ror.org/00twb6c09","country_code":"LV","type":"education","lineage":["https://openalex.org/I201787326"]}],"countries":["LV"],"is_corresponding":false,"raw_author_name":"Artjoms Suponenkovs","raw_affiliation_strings":["Institute of Smart Computer Technologies, Riga Technical University, LV-1048 Riga, Latvia"],"raw_orcid":"https://orcid.org/0000-0002-1463-8166","affiliations":[{"raw_affiliation_string":"Institute of Smart Computer Technologies, Riga Technical University, LV-1048 Riga, Latvia","institution_ids":["https://openalex.org/I201787326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071955853","display_name":"A. N. Bondarenko","orcid":"https://orcid.org/0000-0002-4103-6814"},"institutions":[{"id":"https://openalex.org/I201787326","display_name":"Riga Technical University","ror":"https://ror.org/00twb6c09","country_code":"LV","type":"education","lineage":["https://openalex.org/I201787326"]}],"countries":["LV"],"is_corresponding":false,"raw_author_name":"Andrey Bondarenko","raw_affiliation_strings":["Institute of Smart Computer Technologies, Riga Technical University, LV-1048 Riga, Latvia"],"raw_orcid":"https://orcid.org/0000-0002-4103-6814","affiliations":[{"raw_affiliation_string":"Institute of Smart Computer Technologies, Riga Technical University, LV-1048 Riga, Latvia","institution_ids":["https://openalex.org/I201787326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091463905","display_name":"Dmitrijs B\u013ciz\u0146uks","orcid":"https://orcid.org/0000-0003-4252-9220"},"institutions":[{"id":"https://openalex.org/I201787326","display_name":"Riga Technical University","ror":"https://ror.org/00twb6c09","country_code":"LV","type":"education","lineage":["https://openalex.org/I201787326"]}],"countries":["LV"],"is_corresponding":true,"raw_author_name":"Dmitrijs B\u013ciz\u0146uks","raw_affiliation_strings":["Institute of Smart Computer Technologies, Riga Technical University, LV-1048 Riga, Latvia"],"raw_orcid":"https://orcid.org/0000-0003-4252-9220","affiliations":[{"raw_affiliation_string":"Institute of Smart Computer Technologies, Riga Technical University, LV-1048 Riga, Latvia","institution_ids":["https://openalex.org/I201787326"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5025532000","display_name":"Alexey Lihachev","orcid":"https://orcid.org/0000-0003-4178-895X"},"institutions":[{"id":"https://openalex.org/I91123046","display_name":"University of Latvia","ror":"https://ror.org/05g3mes96","country_code":"LV","type":"education","lineage":["https://openalex.org/I91123046"]}],"countries":["LV"],"is_corresponding":false,"raw_author_name":"Alexey Lihachev","raw_affiliation_strings":["Institute of Atomic Physics and Spectroscopy, University of Latvia, LV-1586 Riga, Latvia"],"raw_orcid":"https://orcid.org/0000-0003-4178-895X","affiliations":[{"raw_affiliation_string":"Institute of Atomic Physics and Spectroscopy, University of Latvia, LV-1586 Riga, Latvia","institution_ids":["https://openalex.org/I91123046"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5091463905"],"corresponding_institution_ids":["https://openalex.org/I201787326"],"apc_list":{"value":2400,"currency":"CHF","value_usd":2598},"apc_paid":{"value":2400,"currency":"CHF","value_usd":2598},"fwci":2.3192,"has_fulltext":true,"cited_by_count":7,"citation_normalized_percentile":{"value":0.89572393,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"23","issue":"19","first_page":"8337","last_page":"8337"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9997000098228455,"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"}},"topics":[{"id":"https://openalex.org/T12859","display_name":"Cell Image Analysis Techniques","score":0.9997000098228455,"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"}},{"id":"https://openalex.org/T10862","display_name":"AI in cancer detection","score":0.9936000108718872,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9907000064849854,"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/bottleneck","display_name":"Bottleneck","score":0.7233676910400391},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6550806760787964},{"id":"https://openalex.org/keywords/segmentation","display_name":"Segmentation","score":0.5929630994796753},{"id":"https://openalex.org/keywords/pixel","display_name":"Pixel","score":0.5737746953964233},{"id":"https://openalex.org/keywords/heuristics","display_name":"Heuristics","score":0.5267781019210815},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5153007507324219},{"id":"https://openalex.org/keywords/petri-dish","display_name":"Petri dish","score":0.5079460740089417},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.42292726039886475},{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.41231754422187805},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3861757516860962},{"id":"https://openalex.org/keywords/computer-vision","display_name":"Computer vision","score":0.35892820358276367},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.3511559069156647},{"id":"https://openalex.org/keywords/real-time-computing","display_name":"Real-time computing","score":0.3282594084739685},{"id":"https://openalex.org/keywords/embedded-system","display_name":"Embedded system","score":0.1608242392539978}],"concepts":[{"id":"https://openalex.org/C2780513914","wikidata":"https://www.wikidata.org/wiki/Q18210350","display_name":"Bottleneck","level":2,"score":0.7233676910400391},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6550806760787964},{"id":"https://openalex.org/C89600930","wikidata":"https://www.wikidata.org/wiki/Q1423946","display_name":"Segmentation","level":2,"score":0.5929630994796753},{"id":"https://openalex.org/C160633673","wikidata":"https://www.wikidata.org/wiki/Q355198","display_name":"Pixel","level":2,"score":0.5737746953964233},{"id":"https://openalex.org/C127705205","wikidata":"https://www.wikidata.org/wiki/Q5748245","display_name":"Heuristics","level":2,"score":0.5267781019210815},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5153007507324219},{"id":"https://openalex.org/C146763376","wikidata":"https://www.wikidata.org/wiki/Q81714","display_name":"Petri dish","level":2,"score":0.5079460740089417},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.42292726039886475},{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.41231754422187805},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3861757516860962},{"id":"https://openalex.org/C31972630","wikidata":"https://www.wikidata.org/wiki/Q844240","display_name":"Computer vision","level":1,"score":0.35892820358276367},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.3511559069156647},{"id":"https://openalex.org/C79403827","wikidata":"https://www.wikidata.org/wiki/Q3988","display_name":"Real-time computing","level":1,"score":0.3282594084739685},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.1608242392539978},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"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/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.3390/s23198337","is_oa":true,"landing_page_url":"https://doi.org/10.3390/s23198337","pdf_url":"https://www.mdpi.com/1424-8220/23/19/8337/pdf?version=1696856559","source":{"id":"https://openalex.org/S101949793","display_name":"Sensors","issn_l":"1424-8220","issn":["1424-8220"],"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":"Sensors","raw_type":"journal-article"},{"id":"pmid:37837169","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37837169","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":"Sensors (Basel, Switzerland)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10575106","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10575106","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10575106/pdf/sensors-23-08337.pdf","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":"Sensors (Basel)","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:5b4b71a36a4841e9acb4a2d6a291c0b5","is_oa":true,"landing_page_url":"https://doaj.org/article/5b4b71a36a4841e9acb4a2d6a291c0b5","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":"Sensors, Vol 23, Iss 19, p 8337 (2023)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3390/s23198337","is_oa":true,"landing_page_url":"https://doi.org/10.3390/s23198337","pdf_url":"https://www.mdpi.com/1424-8220/23/19/8337/pdf?version=1696856559","source":{"id":"https://openalex.org/S101949793","display_name":"Sensors","issn_l":"1424-8220","issn":["1424-8220"],"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":"Sensors","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G6492220724","display_name":null,"funder_award_id":"1.1.1.1/19A/147","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"}],"funders":[{"id":"https://openalex.org/F4320335322","display_name":"European Regional Development Fund","ror":"https://ror.org/00k4n6c32"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4387450925.pdf"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1901129140","https://openalex.org/W2007623183","https://openalex.org/W2008255403","https://openalex.org/W2019484965","https://openalex.org/W2093599914","https://openalex.org/W2296335794","https://openalex.org/W2332628140","https://openalex.org/W2559196158","https://openalex.org/W2774320778","https://openalex.org/W2807098876","https://openalex.org/W2884436604","https://openalex.org/W2914363005","https://openalex.org/W2928133111","https://openalex.org/W2978442853","https://openalex.org/W2978457402","https://openalex.org/W2995942064","https://openalex.org/W3025800305","https://openalex.org/W3164538928","https://openalex.org/W3181915162","https://openalex.org/W3183452672","https://openalex.org/W4210605652","https://openalex.org/W4213154849","https://openalex.org/W4282937861","https://openalex.org/W4283263154","https://openalex.org/W4308262349","https://openalex.org/W4381429805","https://openalex.org/W6631190155","https://openalex.org/W6639824700","https://openalex.org/W6697144307","https://openalex.org/W6753182481"],"related_works":["https://openalex.org/W2595172197","https://openalex.org/W3125248252","https://openalex.org/W2084856301","https://openalex.org/W2127970246","https://openalex.org/W2069614234","https://openalex.org/W2885125400","https://openalex.org/W1989889224","https://openalex.org/W4382618745","https://openalex.org/W1973775000","https://openalex.org/W1967576338"],"abstract_inverted_index":{"Colony-Forming":[0],"Unit":[1],"(CFU)":[2],"counting":[3,58,101,168,196],"is":[4,129,173],"a":[5,9,50,98,104,109,116,180,186,195,229],"complex":[6],"problem":[7],"without":[8],"universal":[10],"solution":[11,320],"in":[12,43,120,131,289,321,327],"biomedical":[13],"and":[14,23,38,54,65,86,108,162,194,210,281,292],"food":[15],"safety":[16],"domains.":[17,45],"A":[18],"multitude":[19],"of":[20,140,179,238,248,307,316,325],"sophisticated":[21],"heuristics":[22],"segmentation-driven":[24],"approaches":[25],"have":[26,251],"been":[27],"proposed":[28,262,318],"by":[29,176,283],"researchers.":[30],"However,":[31,69],"U-Net":[32,106,123,134,257],"remains":[33],"the":[34,121,132,138,153,166,171,177,206,212,216,225,235,239,246,261,305,308,314,317],"most":[35],"frequently":[36],"cited":[37],"used":[39],"deep":[40,240],"learning":[41,241],"method":[42],"these":[44,93],"The":[46,199],"latter":[47,200],"approach":[48,264],"provides":[49,220],"segmentation":[51,213],"output":[52],"map":[53],"requires":[55],"an":[56,141,159,221],"additional":[57,126],"procedure":[59],"to":[60,71,76,84,92,147,215,223,234,287],"calculate":[61],"unique":[62,117],"segmented":[63],"regions":[64],"detect":[66],"microbial":[67],"colonies.":[68],"due":[70],"pixel-based":[72],"targets,":[73],"it":[74],"tends":[75],"generate":[77],"irrelevant":[78],"artifacts":[79],"or":[80],"errant":[81],"pixels,":[82],"leading":[83],"inaccurate":[85],"mixed":[87],"post-processing":[88,110],"results.":[89],"In":[90],"response":[91],"challenges,":[94],"this":[95,249],"paper":[96,250],"proposes":[97],"novel":[99,154,309],"hybrid":[100,263,319],"approach,":[102],"incorporating":[103],"multi-loss":[105,122,256],"reformulation":[107],"Petri":[111,190],"dish":[112,191],"localization":[113,155,310],"algorithm.":[114,311],"Firstly,":[115],"innovation":[118],"lies":[119],"reformulation.":[124],"An":[125],"loss":[127],"term":[128],"introduced":[130],"bottleneck":[133],"layer,":[135],"focusing":[136],"on":[137],"delivery":[139],"auxiliary":[142],"signal":[143],"that":[144,232,253],"indicates":[145],"where":[146],"look":[148],"for":[149],"distinct":[150],"CFUs.":[151],"Secondly,":[152],"algorithm":[156],"automatically":[157],"incorporates":[158],"agar":[160],"plate":[161],"its":[163],"bezel":[164],"into":[165,260],"CFU":[167,226,329],"techniques.":[169],"Finally,":[170],"proposition":[172],"further":[174],"enhanced":[175],"integration":[178],"fully":[181],"automated":[182],"solution,":[183],"which":[184],"comprises":[185],"specially":[187],"designed":[188],"uniform":[189],"illumination":[192],"system":[193],"web":[197],"application.":[198],"application":[201],"directly":[202],"receives":[203],"images":[204],"from":[205],"camera,":[207],"processes":[208],"them,":[209],"sends":[211],"results":[214],"user.":[217],"This":[218,312],"feature":[219],"opportunity":[222],"correct":[224],"counts,":[227],"offering":[228],"feedback":[230],"loop":[231],"contributes":[233],"continued":[236],"development":[237],"model.":[242],"Through":[243],"extensive":[244],"experimentation,":[245],"authors":[247],"found":[252],"all":[254],"probed":[255],"architectures":[258],"incorporated":[259],"consistently":[265],"outperformed":[266],"their":[267],"single-loss":[268],"counterparts,":[269],"as":[270,272,277],"well":[271],"other":[273],"comparable":[274],"models":[275],"such":[276],"self-normalized":[278],"density":[279],"maps":[280],"YOLOv6,":[282],"at":[284],"least":[285],"1%":[286],"3%":[288],"mean":[290,294],"absolute":[291,295],"symmetric":[293],"percentage":[296],"errors.":[297],"Further":[298],"significant":[299],"improvements":[300],"were":[301],"also":[302],"reported":[303],"through":[304],"means":[306],"reaffirms":[313],"effectiveness":[315],"addressing":[322],"contemporary":[323],"challenges":[324],"precise":[326],"vitro":[328],"counting.":[330]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":1}],"updated_date":"2026-06-12T08:23:45.883708","created_date":"2025-10-10T00:00:00"}
