{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,29]],"date-time":"2026-09-29T15:44:09Z","timestamp":1790696649363,"version":"4.1.0"},"reference-count":53,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2022,1,1]],"date-time":"2022-01-01T00:00:00Z","timestamp":1640995200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/501100004543","name":"China Scholarship Council","doi-asserted-by":"publisher","award":["201806315005"],"award-info":[{"award-number":["201806315005"]}],"id":[{"id":"10.13039\/501100004543","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Journal of Microbiological Methods"],"published-print":{"date-parts":[[2022,1]]},"DOI":"10.1016\/j.mimet.2021.106378","type":"journal-article","created":{"date-parts":[[2021,11,21]],"date-time":"2021-11-21T17:20:14Z","timestamp":1637515214000},"page":"106378","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":37,"special_numbering":"C","title":["Accurate classification of Listeria species by MALDI-TOF mass spectrometry incorporating denoising autoencoder and machine learning"],"prefix":"10.1016","volume":"192","author":[{"given":"Yunhong","family":"Li","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zeyu","family":"Gan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xi","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhiwei","family":"Chen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.mimet.2021.106378_bb0005","article-title":"Genome sequencing identifies listeria fleischmannii subsp. coloradonensis subsp. nov. isolated from a ranch","author":"Bakker","year":"2013","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0010","doi-asserted-by":"crossref","DOI":"10.1128\/AEM.02689-07","article-title":"Rapid identification and typing of listeria species by matrix-assisted laser desorption ionization-time of flight mass spectrometry","author":"Barbuddhe","year":"2008","journal-title":"J. Appl. Environ. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0015","doi-asserted-by":"crossref","DOI":"10.1128\/AEM.02689-07","article-title":"Rapid identification and typing of listeria species by matrix-assisted laser desorption ionization-time of flight mass spectrometry","author":"Barbuddhe","year":"2008","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0020","article-title":"Deaths associated with bacterial pathogens transmitted commonly through food: foodborne diseases active surveillance network (FoodNet), 1996\u20132005","author":"Behravesh","year":"2011","journal-title":"J. Infect. Dis."},{"key":"10.1016\/j.mimet.2021.106378_bb0025","doi-asserted-by":"crossref","DOI":"10.1155\/2015\/516410","article-title":"Performances and Reliability of Bruker Microflex LT and VITEK MS MALDI-TOF Mass Spectrometry Systems for the Identification of Clinical Microorganisms","author":"Bilecen","year":"2015","journal-title":"Biomed. Res. Int."},{"key":"10.1016\/j.mimet.2021.106378_bb0030","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.01794-09","article-title":"Performance of matrix-assisted laser desorption ionization-time of flight mass spectrometry for identification of bacterial strains routinely isolated in a clinical microbiology laboratory","author":"Bizzini","year":"2010","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0035","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2018.01744","article-title":"Susceptibility testing of bacteria using MALDI-TOF mass spectrometry","author":"Burckhardt","year":"2018","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0040","article-title":"Listeria cossartiae sp. nov., Listeria immobilis sp. nov., Listeria portnoyi sp. nov. and Listeria rustica sp. nov., isolated from agricultural water and natural environments","author":"Carlin","year":"2021","journal-title":"Int. J. Syst. Evol. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0045","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.01881-09","article-title":"Comparison of two matrix-assisted laser desorption ionization-time of flight mass spectrometry methods with conventional phenotypic identification for routine identification of bacteria to the species level","author":"Cherkaoui","year":"2010","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0050","doi-asserted-by":"crossref","DOI":"10.1056\/NEJM199701093360204","article-title":"An outbreak of gastroenteritis and fever due to Listeria monocytogenes in milk","author":"Dalton","year":"1997","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.mimet.2021.106378_bb0055","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.00343-12","article-title":"Performances of the Vitek MS matrix-assisted laser desorption ionization\u2013time of flight mass spectrometry system for rapid identification of bacteria in routine clinical microbiology","author":"Dubois","year":"2012","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0060","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.00368-12","article-title":"Evaluation of the Andromas matrix-assisted laser desorption ionization\u2013time of flight mass spectrometry system for identification of aerobically growing gram-positive bacilli","author":"Farfour","year":"2012","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0065","doi-asserted-by":"crossref","DOI":"10.1099\/jmmcr.0.003103","article-title":"First case of Listeria innocua meningitis in a patient on steroids and eternecept","author":"Favaro","year":"2014","journal-title":"JMM Case Rep."},{"key":"10.1016\/j.mimet.2021.106378_bb0070","doi-asserted-by":"crossref","DOI":"10.1016\/j.saa.2020.119423","article-title":"Artificial Neural Networks Combined Multi-Wavelength Transmission Spectrum Feature Extraction for Sensitive Identification of Waterborne bacteria","author":"Feng","year":"2021","journal-title":"Spectrochim. Acta. A. Mol. Biomol. Spectrosc."},{"key":"10.1016\/j.mimet.2021.106378_bb0075","doi-asserted-by":"crossref","DOI":"10.1002\/mas.10004","article-title":"Characterization of intact microorganisms by MALDI mass spectrometry","author":"Fenselau","year":"2001","journal-title":"Mass Spectrom. Rev."},{"key":"10.1016\/j.mimet.2021.106378_bb0080","doi-asserted-by":"crossref","DOI":"10.1021\/ac5010794","article-title":"Phenotypic mapping of metabolic profiles using self-organizing maps of high-dimensional mass spectrometry data","author":"Goodwin","year":"2014","journal-title":"Anal. Chem."},{"key":"10.1016\/j.mimet.2021.106378_bb0085","doi-asserted-by":"crossref","DOI":"10.1128\/br.30.2.309-382.1966","article-title":"Listeria monocytogenes and listeric in infections","author":"Gray","year":"1966","journal-title":"Bacteriol. Rev."},{"key":"10.1016\/j.mimet.2021.106378_bb0090","doi-asserted-by":"crossref","DOI":"10.1155\/2014\/358051","article-title":"What Is New in Listeriosis?","author":"Hernandez-Milian","year":"2014","journal-title":"Biomed. Res. Int."},{"key":"10.1016\/j.mimet.2021.106378_bb0095","first-page":"189","article-title":"One-class autoencoder approach to classify Raman spectra outliers","volume":"2018","author":"Hofer-Schmitz","year":"2018","journal-title":"ESANN."},{"key":"10.1016\/j.mimet.2021.106378_bb0100","doi-asserted-by":"crossref","DOI":"10.1002\/(SICI)1097-0231(19960731)10:10<1227::AID-RCM659>3.0.CO;2-6","article-title":"Rapid identification of intact whole bacteria based on spectral patterns using matrix-assisted laser desorption\/ionization with time-of-flight mass spectrometry","author":"Holland","year":"1996","journal-title":"Rapid Commun. Mass Spectrom."},{"key":"10.1016\/j.mimet.2021.106378_bb0105","article-title":"Bruker Biotyper matrix-assisted laser desorption ionization\u2013time of flight mass spectrometry system for identification of Nocardia, Rhodococcus, Kocuria, Gordonia, Tsukamurella, and Listeria species","author":"Hsueh","year":"2014","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0110","doi-asserted-by":"crossref","DOI":"10.1016\/j.mimet.2012.01.002","article-title":"Methods used for the detection and subtyping of Listeria monocytogenes","author":"Jadhav","year":"2012","journal-title":"J. Microbiol. Methods"},{"key":"10.1016\/j.mimet.2021.106378_bb0115","doi-asserted-by":"crossref","DOI":"10.1016\/j.jprot.2013.09.014","article-title":"Detection of Listeria monocytogenes from selective enrichment broth using MALDI\u2013TOF mass spectrometry","author":"Jadhav","year":"2014","journal-title":"J. Proteome"},{"key":"10.1016\/j.mimet.2021.106378_bb0120","doi-asserted-by":"crossref","DOI":"10.1016\/j.ijfoodmicro.2015.01.023","article-title":"Rapid identification and source-tracking of Listeria monocytogenes using MALDI-TOF mass spectrometry","author":"Jadhav","year":"2015","journal-title":"Int. J. Food Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0125","series-title":"Adam: A Method for Stochastic Optimization","author":"Kingma","year":"2014"},{"key":"10.1016\/j.mimet.2021.106378_bb0130","doi-asserted-by":"crossref","DOI":"10.1155\/ASP\/2006\/63582","article-title":"MALDI-TOF Baseline Drift Removal Using Stochastic Bernstein Approximation","author":"Kolibal","year":"2006","journal-title":"EURASIP J. Adv. Sig. Pr."},{"key":"10.1016\/j.mimet.2021.106378_bb0135","doi-asserted-by":"crossref","DOI":"10.1038\/nature14539","article-title":"Deep learning","author":"LeCun","year":"2015","journal-title":"Nature."},{"key":"10.1016\/j.mimet.2021.106378_bb0140","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.00389-09","article-title":"Matrix-assisted laser desorption ionization-time of flight mass spectrometry for fast and reliable identification of clinical yeast isolates","author":"Marklein","year":"2009","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0145","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.05971-11","article-title":"Comparison of the microflex LT and Vitek MS systems for routine identification of bacteria by matrix-assisted laser desorption ionization\u2013time of flight mass spectrometry","author":"Martiny","year":"2012","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0150","article-title":"Genetic characteristics of Japanese clinical Listeria monocytogenes isolates","author":"Miya","year":"2015","journal-title":"PLoS One"},{"key":"10.1016\/j.mimet.2021.106378_bb0155","doi-asserted-by":"crossref","DOI":"10.1128\/AEM.67.2.646-653.2001","article-title":"Characterization and pathogenic potential of Listeria monocytogenes isolates from the smoked fish industry","author":"Norton","year":"2001","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0160","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0159730","article-title":"Matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) can precisely discriminate the lineages of Listeria monocytogenes and species of Listeria","author":"Ojima-Kato","year":"2016","journal-title":"PLoS One"},{"key":"10.1016\/j.mimet.2021.106378_bb0165","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.01900-17","article-title":"Improved discrimination of bacillus anthracis from closely related species in the bacillus cereus sensu lato group based on maldi-tof mass spectrometry","author":"Pauker","year":"2018","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0170","doi-asserted-by":"crossref","DOI":"10.1021\/ac034069b","article-title":"Microorganism identification by matrix-assisted laser\/desorption ionization mass spectrometry and model-derived ribosomal protein biomarkers","author":"Pineda","year":"2003","journal-title":"Anal. Chem."},{"key":"10.1016\/j.mimet.2021.106378_bb0175","doi-asserted-by":"crossref","DOI":"10.1016\/j.lwt.2014.03.005","article-title":"Quantitative detection of Listeria monocytogenes in raw milk and soft cheeses: culture-independent versus liquid- and solid-based culture-dependent real time PCR approaches","author":"Quero","year":"2014","journal-title":"Lebensm. Wiss. Technol."},{"key":"10.1016\/j.mimet.2021.106378_bb0180","article-title":"A hybrid CNN + random Forest approach to delineate debris covered glaciers using deep features","author":"Rahul","year":"2018","journal-title":"J. Indian Soc. Remote."},{"key":"10.1016\/j.mimet.2021.106378_bb0185","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.00682-13","article-title":"Multicenter evaluation of the Vitek MS matrix-assisted laser desorption ionization\u2013time of flight mass spectrometry system for identification of gram-positive aerobic bacteria","author":"Rychert","year":"2013","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0190","doi-asserted-by":"crossref","DOI":"10.1038\/nrmicro2243","article-title":"Mass spectrometry tools for the classification and identification of bacteria","author":"Sauer","year":"2010","journal-title":"Nat. Rev. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0195","article-title":"Foodborne illness acquired in the United States\u2014major pathogens","author":"Scallan","year":"2011","journal-title":"Emerg. Infect. Dis."},{"issue":"9","key":"10.1016\/j.mimet.2021.106378_bb0200","first-page":"775","article-title":"Pathogenesis and immunology of Listeria monocytogenes","volume":"44","author":"Schlech","year":"1996","journal-title":"Pathol. Biol (Paris)"},{"key":"10.1016\/j.mimet.2021.106378_bb0205","doi-asserted-by":"crossref","DOI":"10.1086\/314008","article-title":"Foodborne listeriosis","author":"Schlech","year":"2000","journal-title":"Clin. Infect. Dis."},{"key":"10.1016\/j.mimet.2021.106378_bb0210","doi-asserted-by":"crossref","DOI":"10.3201\/eid0803.010195","article-title":"Listeria monocytogenes infection in Israel and review of cases worldwide","author":"Siegman-Igra","year":"2002","journal-title":"Emerg. Infect. Dis."},{"key":"10.1016\/j.mimet.2021.106378_bb0215","doi-asserted-by":"crossref","DOI":"10.1016\/j.ijmedinf.2019.05.003","article-title":"Predicting breast cancer metastasis by using serum biomarkers and clinicopathological data with machine learning technologies","author":"Tseng","year":"2019","journal-title":"Int. J. Med. Inform."},{"key":"10.1016\/j.mimet.2021.106378_bb0220","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.02071-09","article-title":"High-throughput identification of bacteria and yeast by matrix-assisted laser desorption ionization-time of flight mass spectrometry in conventional medical microbiology laboratories","author":"Van Veen","year":"2010","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0225","series-title":"In 2019 IEEE International Conference on Electrical, Computer and Communication Technologies (ICECCT)","article-title":"Pneumonia detection using CNN based feature extraction, p 1\u20137","author":"Varshni","year":"2019"},{"key":"10.1016\/j.mimet.2021.106378_bb0230","doi-asserted-by":"crossref","DOI":"10.1128\/CMR.14.3.584-640.2001","article-title":"Listeria pathogenesis and molecular virulence determinants","author":"V\u00e1zquez-Boland","year":"2001","journal-title":"Clin. Microbiol. Rev."},{"key":"10.1016\/j.mimet.2021.106378_bb0235","article-title":"Cancers screening in an asymptomatic population by using multiple tumour markers","author":"Wang","year":"2016","journal-title":"PLoS One"},{"key":"10.1016\/j.mimet.2021.106378_bb0240","article-title":"Rapid detection of heterogeneous vancomycin-intermediate Staphylococcus aureus based on matrix-assisted laser desorption ionization time-of-flight: using a machine learning approach and unbiased validation","author":"Wang","year":"2018","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.mimet.2021.106378_bb0245","doi-asserted-by":"crossref","DOI":"10.7717\/peerj.5784","article-title":"Application of a MALDI-TOF analysis platform (ClinProTools) for rapid and preliminary report of MRSA sequence types in Taiwan","author":"Wang","year":"2018","journal-title":"PeerJ."},{"key":"10.1016\/j.mimet.2021.106378_bb0250","doi-asserted-by":"crossref","DOI":"10.1089\/cmb.2018.0002","article-title":"Machine learning-based method for obesity risk evaluation using single-nucleotide polymorphisms derived from next-generation sequencing","author":"Wang","year":"2018","journal-title":"J. Comput. Biol."},{"key":"10.1016\/j.mimet.2021.106378_bb0255","doi-asserted-by":"crossref","DOI":"10.1016\/j.cmi.2020.03.014","article-title":"Machine learning for microbial identification and antimicrobial susceptibility testing on MALDI-TOF mass spectra: a systematic review","author":"Weis","year":"2020","journal-title":"Clin. Microbiol. Infect."},{"key":"10.1016\/j.mimet.2021.106378_bb0260","doi-asserted-by":"crossref","DOI":"10.1155\/2016\/3632943","article-title":"Stacked denoise autoencoder based feature extraction and classification for hyperspectral images","author":"Xing","year":"2016","journal-title":"J. Sens."},{"key":"10.1016\/j.mimet.2021.106378_bb0265","doi-asserted-by":"crossref","DOI":"10.1016\/j.talanta.2021.122195","article-title":"Raman spectroscopy combined with machine learning for rapid detection of food-borne pathogens at the single-cell level","author":"Yan","year":"2021","journal-title":"Talanta."}],"container-title":["Journal of Microbiological Methods"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0167701221002463?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0167701221002463?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,9,29]],"date-time":"2025-09-29T00:04:43Z","timestamp":1759104283000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0167701221002463"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,1]]},"references-count":53,"alternative-id":["S0167701221002463"],"URL":"https:\/\/doi.org\/10.1016\/j.mimet.2021.106378","relation":{},"ISSN":["0167-7012"],"issn-type":[{"value":"0167-7012","type":"print"}],"subject":[],"published":{"date-parts":[[2022,1]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Accurate classification of Listeria species by MALDI-TOF mass spectrometry incorporating denoising autoencoder and machine learning","name":"articletitle","label":"Article Title"},{"value":"Journal of Microbiological Methods","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.mimet.2021.106378","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2021 Elsevier B.V. All rights reserved.","name":"copyright","label":"Copyright"}],"article-number":"106378"}}