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ARS Home » Northeast Area » Beltsville, Maryland (BARC) » Beltsville Agricultural Research Center » Environmental Microbial & Food Safety Laboratory » People & Locations » Xianghe Yan
Xianghe Yan (PhD)
Environmental Microbial & Food Safety Laboratory
Computational Biologist

Phone: (301) 504-9292
Fax:

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Projects
Evaluation of Genetic and Management Factors to Reduce Foodborne Pathogens and Antimicrobial Resistance in Dairy Cattle
In-House Appropriated (D)
  Accession Number: 440225
Intervention Strategies to Mitigate the Food Safety Risks Associated with the Fresh Produce Supply Chain
In-House Appropriated (D)
  Accession Number: 440378

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)
Effects of Eimeria acervulina infection on the luminal and mucosal microbiota of the cecum and ileum in broiler chickens Reprint Icon - (Peer Reviewed Journal)
Campos, P.M., Miska, K.B., Jenkins, M.C., Yan, X., Proszkowiec-Wegla, M.K. 2024. Effects of Eimeria acervulina infection on the luminal and mucosal microbiota of the cecum and ileum in broiler chickens. Scientific Reports. 14: 10702. https://doi.org/10.1038/s41598-024-61299-6.
Effects of Eimeria acervulina infection on the luminal and mucosal microbiota of the duodenum and jejunum in broiler chickens Reprint Icon - (Peer Reviewed Journal)
Campos, P.M., Miska, K.B., Jenkins, M.C., Yan, X., Proszkowiec-Wegla, M.K. 2023. Effects of Eimeria acervulina infection on the luminal and mucosal microbiota of the duodenum and jejunum in broiler chickens. Frontiers in Physiology. 14:1147579. https://doi.org/10.3389/fmicb.2023.1147579.
Complete genome sequences of multidrug-resistant Campylobacter coli strains YH501, YH503, and YH504 from retail chicken Reprint Icon - (Peer Reviewed Journal)
He, Y., Reed, S.A., Yan, X., Zhang, D., Strobaugh Jr, T.P., Capobianco Jr, J.A., Gehring, A.G. 2022. Complete genome sequences of multidrug-resistant Campylobacter coli strains YH501, YH503, and YH504 from retail chicken. Microbiology Resource Announcements. Available online: https://www.researchgate.net/journal/Microbiology-Resource-Announcements-2576-098X. https://doi.org/10.1128%2Fmra.00237-22.
Immunization with pooled antigens for Clostridium perfringens conferred partial protection against experimental necrotic enteritis in broiler chickens Reprint Icon - (Peer Reviewed Journal)
Yuan, B., Sun, Z., Lu, M., Lillehoj, H.S., Lee, Y., Liu, L., Yan, X., Li, C.Z. 2022. Immunization with pooled antigens for Clostridium perfringens conferred partial protection against experimental necrotic enteritis in broiler chickens. Vaccines. 10(6):979. https://doi.org/10.3390/vaccines10060979.
Comparative transcriptome analysis reveals differentially expressed genes related to antimicrobial properties of lysostaphin in Staphylococcus aureus Reprint Icon - (Peer Reviewed Journal)
Yan, X., Xie, Y., Li, C.C., Donovan, D.M., Gehring, A.G., Irwin, P.L., He, Y. 2022. Comparative transcriptome analysis reveals differentially expressed genes related to antimicrobial properties of lysostaphin in Staphylococcus aureus. Applied Microbiology and Biotechnology. 11(2):125. https://doi.org/10.3390/antibiotics11020125.
Clostridium perfringens-Induced Host-Pathogen Transcriptional Changes in the Small Intestine of Broiler Chickens Reprint Icon - (Peer Reviewed Journal)
Lu, M., Yuan, B., Yan, X., Sun, Z., Lillehoj, H.S., Lee, Y., Li, C.Z. 2021. Clostridium perfringens-Induced Host-Pathogen Transcriptional Changes in the Small Intestine of Broiler Chickens. Pathogens. 10(12):1607. https://doi.org/10.3390/pathogens10121607.
A targeted sequencing assay for serotyping Escherichia coli using AgriSeq technology Reprint Icon - (Peer Reviewed Journal)
Elders, J., Fratamico, P., Liu, Y., Needleman, D., Bagi, L.K., Tebbs, R., Allred, A., Siddavatam, P., Suren, H., Gujjula, K., Debroy, G., Dudley, E.G., Yan, X. 2021. A targeted sequencing assay for serotyping Escherichia coli using AgriSeq technology. Frontiers in Microbiology. https://doi.org/10.3389/fmicb.2020.627997.
Effects of Eimeria maxima and Clostridium perfringens infections on cecal microbiome components and correlation with body weight in broiler chickens Reprint Icon - (Peer Reviewed Journal)
Lu, M., Li, R., Zhao, H., Yan, X., Lillehoj, H.S., Sun, Z., Oh, S., Wang, Y., Li, C.Z. 2020. Effects of Eimeria maxima and Clostridium perfringens infections on cecal microbiome components and correlation with body weight in broiler chickens. Research in Veterinary Science. https://doi.org/10.1016/j.rvsc.2020.05.013.
Immunization with a subunit of housekeeping proteins provide partial protection against experimental necrotic enteritis in broiler chickens - (Abstract Only)
Immunization with subunits of important virulence factors produced by virulent Clostridium perfringens strains conferred partial protection against necrotic enteritis in broiler chickens - (Abstract Only)
Submission of genome sequences of Clostridium perfringens strain LLY_Tpel17 into genBank database - (Database / Dataset)
Eimeria maxima-induced transcriptional changes in the chicken intestine Reprint Icon - (Peer Reviewed Journal)
Li, C.Z., Yan, X., Lillehoj, H.S., Gu, C., Sun, Z., Oh, S., Lee, Y., Xianyu, Z., Zhao, H., Liu, L. 2019. Eimeria maxima-induced transcriptional changes in the chicken intestine. Frontiers in Immunology. 12:285. https://doi.org/10.1186/s13071-019-3534-4.
Eimeria maxima-induced transcriptional changes in the cecal mucosa of broiler chickens Reprint Icon - (Peer Reviewed Journal)
Li, C.Z., Yan, X., Lillehoj, H.S., Gu, C., Sun, Z., Oh, S., Lee, Y., Xianyu, Z., Zhao, H., Liu, L. 2019. Eimeria maxima-induced transcriptional changes in the cecal mucosa of broiler chickens. Parasites & Vectors. https://doi.org/10.1186/s13071-019-3534-4.
The transcriptional changes in chicken intestines in response to C. perfringens infection - (Abstract Only)
Whole genome sequencing and annotation of Staphylococcus aureus strain SJTUF_J27 isolated from seaweed Reprint Icon - (Peer Reviewed Journal)
Xie, Y., He, Y., Ghatak, S., Irwin, P.L., Yan, X., Strobaugh Jr, T.P., Gehring, A.G. 2018. Whole genome sequencing and annotation of Staphylococcus aureus strain SJTUF_J27 isolated from seaweed. Data in Brief. 20:894-898. https://doi.org/10.1016/j.dib.2018.08.084.
Comparison of pathogenicity of several Clostridium perfringens strains with Eimeria maxima co-infection in inducing necrotic enteritis lesions in broiler chickens - (Abstract Only)
Li, C.Z., Liu, L., Yan, X., Lillehoj, H.S., Sun, Z., Zhao, H., Xianyu, Z., Lee, Y. 2018. Comparison of pathogenicity of several Clostridium perfringens strains with Eimeria maxima co-infection in inducing necrotic enteritis lesions in broiler chickens. Meeting Abstract. P19.
Characterization of clostridium perfringens netB+tpel+ type A atrains isolated from necrotic enteritis-afflicted broiler chickens - (Other)
Li, C.Z., Lillehoj, H.S., Yan, X., Gu, C., Sun, Z., Lee, Y., Zhao, H., Xianyu, Z., Siragusa, G.R., Grant, A. 2018. Characterization of clostridium perfringens netB+tpel+ type A atrains isolated from necrotic enteritis-afflicted broiler chickens. Meeting Abstract. P52.
Development and characterization of chicken CD127-cpecific antibodies - (Abstract Only)
Complete genome sequences of two strains of the meat spoilage bacterium Brochothrix thermosphacta isolated from ground chicken Reprint Icon - (Peer Reviewed Journal)
Paoli, G., Wijey, C., Nguyen, L.T., Chen, C., Yan, X., Irwin, P.L. 2017. Complete genome sequences of two strains of the meat spoilage bacterium Brochothrix thermosphacta isolated from ground chicken. Genome Announcements. 5:47. 10.1128/genomeA.01357-17.
Complete genome sequences of slostridium perfringens strain del1 isolated from necrotic enteritis-afflicted chicken farm Reprint Icon - (Peer Reviewed Journal)
Li, C.Z., Yan, X., Lillehoj, H.S. 2018. Complete genome sequences of slostridium perfringens strain del1 isolated from necrotic enteritis-afflicted chicken farm. Gut Pathogens. 9:69. https://doi.org/10.1186/s13099-017-0217-6.
Effects of Eimeria maxima and Clostridium perfringens infections on Cecal Microbiome in Broiler Chickens Analyzed by 16S rRNA Sequencing - (Abstract Only)
Genetic basis for the resistance of Staphylococcus aureus to peptidoglycan hydrolase by comparative transcriptome and whole genome sequence analysis - (Abstract Only)
Intestinal meta-transcriptome comparison reveals disparate antiviral transcriptional response and its association with Mitochondria in chicken immunity development - (Abstract Only)
Comparative genomic analysis of full genome sequences of two closely related isolates of Clostridium perfringens reveals regions of genome plasticity with prevention potential - (Other)
Draft genome sequences of clostridium perfringens strain LLY_N11, a pathogenic isolate of necrotic enteritis from a healthy chicken Reprint Icon - (Peer Reviewed Journal)
Li, C.Z., Yan, X., Lillehoj, H.S. 2017. Draft genome sequences of clostridium perfringens strain LLY_N11, a pathogenic isolate of necrotic enteritis from a healthy chicken. Genome Announcements. 5:44. https://doi.org/10.1128/genomeA.01225-17.
Genome sequences of Ralstonia insidiosa type strain ATCC 49129 and strain FC1138, a strong biofilm producer isolated from a fresh-cut produce-processing plant - (Peer Reviewed Journal)
Xu, Y., Nagy, A., Liu, N., Nou, X., Yan, X., Haley, B.J., Kim, S. 2016. Genome sequences of Ralstonia insidiosa type strain ATCC 49129 and strain FC1138, a strong biofilm producer isolated from a fresh-cut produce-processing plant. American Society for Microbiology, Genome Announcements. 4(4):e00847-17.
Whole-genome sequence of Escherichia coli serotype O157:H7 strain EDL932 (ATCC 43894) - (Peer Reviewed Journal)
Uhlich, G.A., Paoli, G., Chen, C., Cottrell, B.J., Zhang, X., Yan, X. 2016. Whole-genome sequence of Escherichia coli serotype O157:H7 strain EDL932 (ATCC 43894). Genome Announcements. doi: 10.1128/genomeA.00647-16.
Stx1 prophage excision in Escherichia coli strain PA20 confers strong curli and biofilm formation by restoring native mlrA Reprint Icon - (Peer Reviewed Journal)
Uhlich, G.A., Chen, C., Cottrell, B.J., Yan, X., Hofmann, C.S., Nguyen, L.T. 2016. Stx1 prophage excision in Escherichia coli strain PA20 confers strong curli and biofilm formation by restoring native mlrA. FEMS Microbiology Letters. doi: 10.1093/femsle/fnw123.
Comparison of O-antigen gene clusters of all O-serogroups of Escherichia coli and proposal for adopting a new nomenclature for O-typing - (Abstract Only)
Needleman, D.S., Debroy, C., Fratamico, P.M., Yan, X., Baranzoni, G., Liu, Y., Tebbs, R., O'Connell, C.D., Allred, A., Swimley, M., Mwangi, M., Kapur, V., Garay, J., Roberts, E.L., Katani, R. 2016. Comparison of O-antigen gene clusters of all O-serogroups of Escherichia coli and proposal for adopting a new nomenclature for O-typing. Meeting Abstract. [abstract] Association of Biomolecular Resources Facilities Meeting.
Understanding the host-adapted state of Citrobacter rodentium by transcriptomic analysis - (Peer Reviewed Journal)
Smith, A.D., Yan, X., Chen, C.T., Dawson, H.D., Bhagwat, A.A. 2016. Understanding the host-adapted state of Citrobacter rodentium by transcriptomic analysis. Archives Of Microbiology. 198:353-362.
Comparison of O-Antigen gene clusters of all O-Serogroups of Escherichia coli and proposal for adopting a new nomenclature for O-Typing - (Peer Reviewed Journal)
Debroy, C., Fratamico, P.M., Yan, X., Baranzoni, G., Liu, Y., Needleman, D.S., Tebbs, R., O'Connell, C.D., Allred, A., Swimley, M., Mwangi, M., Kapur, V., Raygoza Garay, J., Katani, R., Roberts, E.L. 2016. Comparison of O-Antigen gene clusters of all O-Serogroups of Escherichia coli and proposal for adopting a new nomenclature for O-Typing. PLoS One. DOI:10.1371/journal.pone.0147434.
Genome sequencing and comparative genomics provides insights on the evolutionary dynamics and pathogenic potential of different H-Types of Shiga toxin-producing Escherichia coli O104 - (Peer Reviewed Journal)
Yan, X., Fratamico, P.M., Bono, J.L., Baranzoni, G., Chen, C. 2015. Genome sequencing and comparative genomics provides insights on the evolutionary dynamics and pathogenic potential of different H-Types of Shiga toxin-producing Escherichia coli O104. BMC Microbiology. DOI: 10.1186/s12866-015-0413-9.
Application of metagenomics technologies for antimicrobial resistance and food safety research and beyond - (Book / Chapter)
Chen, C., Yan, X., Wang, S., Jackson, C.R. 2015. Application of metagenomics technologies for antimicrobial resistance and food safety research and beyond. In: Chen, C.Y., Yan, X., and Jackson, C.R., editors. Antimicrobial Resistance and Food Safety-Methods and Techniques. New York, NY: Elsevier B.V. p. 401-422.
Escherichia coli O-antigen gene clusters of serogroups O62, O68, O131, O140, O142, and O163: DNA sequences and similarity between O62 and O68, and PCR-based serogrouping - (Peer Reviewed Journal)
Liu, Y., Fratamico, P.M., Debroy, C., Yan, X., Needleman, D.S., Li, R.W., Wang, W., Losada, L., Brinkac, L., Radune, D., Toro, M., Meng, J. 2015. Escherichia coli O-antigen gene clusters of serogroups O62, O68, O131, O140, O142, and O163: DNA sequences and similarity between O62 and O68, and PCR-based serogrouping. Biosensors. 5:51-68.
Complete genome sequence of Campylobacter jejuni YH001 from beef liver which contains a novel plasmid - (Peer Reviewed Journal)
He, Y., Yan, X., Reed, S.A., Xie, Y., Chen, C., Irwin, P.L. 2015. Complete genome sequence of Campylobacter jejuni YH001 from beef liver which contains a novel plasmid. Genome Announcements. 3(1):e01492-14.
Predicting protein submitochondrial locations using a K-Nearest neighbor method based on the Bit-Score weighted euclidean distance - (Peer Reviewed Journal)
Hu, J., Yan, X. 2014. Predicting protein submitochondrial locations using a K-Nearest neighbor method based on the Bit-Score weighted euclidean distance. Bioinformatics Research and Applications International Symposium Proceedings Series. DOI: 10:1007/9783-319.
Molecular serotyping of Escherichia coli: A verification and reclassification - (Abstract Only)
Yan, X., Fratamico, P.M., Tebbs, R., O'Connell, C., Baranzoni, G., Allred, A., Swimley, M., Debroy, C. 2014. Molecular serotyping of Escherichia coli: A verification and reclassification. Meeting Abstract. MA.
Complete genome sequence and comparison of two Shiga toxin-producing Escherichia coli O104 isolates - (Abstract Only)
Yan, X., Fratamico, P.M., Bono, J.L., Baranzoni, G., Tebbs, R., O'Connell, C. 2014. Complete genome sequence and comparison of two Shiga toxin-producing Escherichia coli O104 isolates. Meeting Abstract. MA.
DNA sequence and analysis of the O-antigen gene clusters of Escherichia coli serogroups O62, O68, O131, O140, O142, and O163 and serogroup-specific PCR assays - (Abstract Only)
Liu, Y., Fratamico, P.M., Debroy, C., Yan, X., Needleman, D.S., Li, R.W., Wang, W., Losada, L., Brinkac, L., Rodune, D., Toro, M., Meng, J. 2014. DNA sequence and analysis of the O-antigen gene clusters of Escherichia coli serogroups O62, O68, O131, O140, O142, and O163 and serogroup-specific PCR assays. Meeting Abstract. March 22-25, 2014.
Phenotypic and genotypic characterization of biofilm forming capability in non-O157 Shiga toxin-producing Escherichia coli strains - (Peer Reviewed Journal)
Chen, C., Hofmann, C.S., Cottrell, B.J., Strobaugh Jr, T.P., Paoli, G., Nguyen, L.T., Yan, X., Uhlich, G.A. 2013. Phenotypic and genotypic characterization of biofilm forming capability in non-O157 Shiga toxin-producing Escherichia coli strains. PLoS One. 8(12):e84863.
Sequencing and genome annotation of honey bee microsporidia parasite, Nosema apis and comparative genome analysis with its sympatric congener, N. ceranae - (Peer Reviewed Journal)
Chen, Y., Pettis, J.S., Zhao, Y., Cornman, R.S., Tallon, L.L., Sadzewicz, L.L., Ye, J., Li, R., Zhang, X., Hamilton, M.C., Pernal, S., Melathopoulos, A., Yan, X., Evans, J.D. 2013. Sequencing and genome annotation of honey bee microsporidia parasite, Nosema apis and comparative genome analysis with its sympatric congener, N. ceranae. Biomed Central (BMC) Genomics. 14:451. DOI: 10.1186/1471-2164-14-451.
A simulated metagenomic approach for bacterial serotyping using shotgun genome sequences coupled with O-Antigen gene cluster analysis - (Abstract Only)
Yan, X., Chen, C., Hu, J., Fratamico, P.M. 2013. A simulated metagenomic approach for bacterial serotyping using shotgun genome sequences coupled with O-Antigen gene cluster analysis. Meeting Abstract. MA.
Cronobacter (Enterobacter) sakazakii - (Book / Chapter)
Yan, X., Gurtler, J. 2014. Cronobacter (Enterobacter) sakazakii. Encyclopedia of Food Microbiology. vol 1. In: Batt, C.A., Tortorello, M.L. (Eds.), Elsevier Ltd, Academic Press. pp. 528-532.
Phylogenetic identification of bacterial MazF toxin protein motifs among probiotic strains and foodborne pathogens and potential implications of engineered probiotic intervention in food - (Peer Reviewed Journal)
Yan, X., Gurtler, J., Fratamico, P.M., Hu, J., Juneja, V.K. 2012. Phylogenetic identification of bacterial MazF toxin protein motifs among probiotic strains and foodborne pathogens and potential implications of engineered probiotic intervention in food. BioMed Central(BMC) Cell & Bioscience. 2:39.
Inactivation of Salmonella enterica on tomato stem scars by sanitizing solutions and vacuum perfusion - (Peer Reviewed Journal)
Gurtler, J., Smelser, A., Niemira, B.A., Jin, Z.T., Yan, X., Geveke, D.J. 2012. Inactivation of Salmonella enterica on tomato stem scars by sanitizing solutions and vacuum perfusion. International Journal of Food Microbiology. 159:84-92.
DNA sequence and analysis of a 90.1 kb virulence plasmid in shiga toxin-producing Escherichia coli (STEC) O145:NM 83-75 - (Peer Reviewed Journal)
Yan, X., Fratamico, P.M., Needleman, D.S., Bayles, D.O. 2012. DNA sequence and analysis of a 90.1 kb virulence plasmid in shiga toxin-producing Escherichia coli (STEC) O145:NM 83-75. Plasmid Journal. 68:25-32.
BS-KNN: an effective algorithm for predicting protein subchloroplast localization - (Peer Reviewed Journal)
Hu, J., Yan, X. 2012. BS-KNN: an effective algorithm for predicting protein subchloroplast localization. Evolutionary Bioinformatics. 8:79-87.
Omics, microbial modeling, and food safety information infrastructure: a food safety perspective - (Book / Chapter)
Yan, X., Juneja, V.K., Fratamico, P.M., Smith, J.L. 2012. Omics, microbial modeling, and food safety information infrastructure: a food safety perspective. In: Yan, X., Juneja, V., Fratamico, P., Smith, J., editors. Omics Technologies and Microbial Modeling in Food-borne Pathogens. Lancaster, PA: DESTech Publication. p. 3-16.
RFID technologies for imported foods inspection - (Book / Chapter)
Bai, L., Yan, X., Biswas, S., Fratamico, P.M. 2012. RFID technologies for imported foods inspection. In: Yan, X., Juneja, V., Fratamico, P., Smith, J., editors. Omics Technologies and Microbial Modeling in Food-borne Pathogens. Lancaster, PA: DEStech Publishers. p. 603-614.
Thermal inactivation of foodborne pathogens and the USDA pathogen modeling program - (Peer Reviewed Journal)
Juneja, V.K., Huang, L., Yan, X. 2011. Thermal inactivation of foodborne pathogens and the USDA pathogen modeling program. Journal of Thermal Analysis. 106(1):191-198.
Sensitive detection of multiple hepatitis A virus genotypes with a single polony-based assay - (Abstract Only)
A comparative genomics approach for biomarker candidate discovery among shiga toxin-producing Escherichia coli - (Abstract Only)
Comprehensive approaches for molecular biomarker discovery for the detection and identification of Cronobacter spp. (Enterobacter sakazakii), Salmonella, and other foodborne pathogens - (Peer Reviewed Journal)
Yan, X., Gurtler, J., Fratamico, P.M., Hu, J., Gunther, N.W., Juneja, V.K., Huang, L. 2011. Comprehensive approaches for molecular biomarker discovery for the detection and identification of Cronobacter spp. (Enterobacter sakazakii), Salmonella, and other foodborne pathogens. Applied and Environmental Microbiology. 77:1833-1843.
Detection by multiplex real-time PCR assays and isolation of Shiga toxin-producing Escherichia coli serogroups O26, O45, O103, O111, O121, and O145 in ground beef - (Peer Reviewed Journal)
Fratamico, P.M., Bagi, L.K., Cray Jr, W.C., Narang, N., Medina, M.B., Liu, Y. 2011. Detection by multiplex real-time PCR assays and isolation of Shiga toxin-producing Escherichia coli serogroups O26, O45, O103, O111, O121, and O145 in ground beef. Foodborne Pathogens and Disease. DOI: 10.1089=fpd.2010.0773.
Differential gene expression of Escherichia coli O157:H7 in ground beef extract compared to tryptic soy broth - (Peer Reviewed Journal)
Fratamico, P.M., Yan, X., Li, Y. 2011. Differential gene expression of Escherichia coli O157:H7 in ground beef extract compared to tryptic soy broth. Journal of Food Science. 76:79-87.
Eavesdropping by bacteria: the role of SdiA in Escherichia coli and Salmonella enterica serovar Typhimurium quorum sensing - (Review Article)
Smith, J.L., Fratamico, P.M., Yan, X. 2011. Eavesdropping by bacteria: the role of SdiA in Escherichia coli and Salmonella enterica serovar Typhimurium quorum sensing. Foodborne Pathogens and Disease. 8:169-178.
The complete DNA sequence and analysis of the virulence plasmid and of five additional plasmids carried by Shiga toxin-producing Escherichia coli O26:H11 strain H30 - (Peer Reviewed Journal)
Fratamico, P.M., Yan, X., Caprioli, A., Esposito, G., Needleman, D.S., Pepe, T., Tozzoli, R., Cortesi, M.L., Morabito, S. 2011. The complete DNA sequence and analysis of the virulence plasmid and of five additional plasmids carried by Shiga toxin-producing Escherichia coli O26:H11 strain H30. Journal of Medical Microbiology. 301:192-203.
Gyr B versus 16s rDNA sequencing for the identification of Campylobacter jejuni, Campylobacter coli, and Campylobacter lari - (Peer Reviewed Journal)
Gunther, N.W., Almond, J.T., Yan, X., Needleman, D.S. 2011. Gyr B versus 16s rDNA sequencing for the identification of Campylobacter jejuni, Campylobacter coli, and Campylobacter lari. Journal of Nucleic Acids Investigation. DOI: 101089/fpd.2010.0773.
Sustainable wireless sensing technologies for imported foods inspection - (Proceedings)
From ontology selection and semantic web to the integrated information system of food-borne diseases and food safety - (Peer Reviewed Journal)
Yan, X., Peng, Y., Meng, J., Rusante, J., Fratamico, P.M., Huang, L., Juneja, V.K., Needleman, D.S. 2011. From ontology selection and semantic web to the integrated information system of food-borne diseases and food safety. Software Tools and Algorithms for Biological Systems. 26-34.
Improved efficiency in amplification of Escherichia coli o-antigen gene clusters using genome-wide sequence comparison - (Abstract Only)
Escherichia coli serogroup O2 and O28ac O-antigen gene cluster sequences and detection of pathogenic E. coli O2 and O28ac by PCR - (Peer Reviewed Journal)
Fratamico, P.M., Yan, X., Debroy, C., Bryne, B., Monaghan, A., Liu, Y., Bolton, D., Fanning, S. 2010. Escherichia coli serogroup O2 and O28ac O-antigen gene cluster sequences and detection of pathogenic E. coli O2 and O28ac by PCR. Canadian Journal of Microbiology. 56:308-316.
Microbial profiling, neural network and semantic web: an integrated information system for human pathogen risk management, prevention and surveillance in food safety - (Proceedings)
Yan, X., Peng, Y., Meng, J., Ruzante, J., Fratamico, P.M., Huang, L., Juneja, V.K. 2009. Microbial profiling, neural network and semantic web: an integrated information system for human pathogen risk management, prevention and surveillance in food safety. International Conference on Predictive Modeling in Foods. 1:11-12.
MicroBQs: a centralized database for use in studying bacterial biofilms and quorum sensing - (Book / Chapter)
Yan, X., Gui, J., Fratamico, P.M. 2009. MicroBQs: a centralized database for use in studying bacterial biofilms and quorum sensing. Book Chapter. Oxford, UK: Woodhead Publishing Ltd. p. 152-166. Biofilms in the Food and Beverage Industries, P.M. Fratamico, B.A. Annous, and N.W. Gunther (Ed.)