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Se-Ran Jun

TitleAssistant Professor
InstitutionUniversity of Arkansas for Medical Sciences
DepartmentBiomedical Informatics, College of Medicine
Address200 South Cedar
Mail Slot # 782
Little Rock AR 72202
Phone501-603-1766
ORCID ORCID Icon0000-0003-2681-3950 Additional info
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    Collapse Educational Activities 

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    Collapse research overview
    Clinical comparative genomics, Microbiome, Virome, Multiomics (Microbiome and Metabolome) Integration, Power analysis for Microbiome study, Microbial GWAS, Machine Learning

    Collapse principal investigator/co-principal investigator research activities
    AWD00052801     (JUN, SE-RAN)Jul 1, 2018 - Jun 30, 2019
    UAMS COM Barton
    Molecular Epidemiology of Vancomycin Resistant Enterococcus faecium in Cancer Patients
    Role: Principle Investigator
    R01AG046171     (BHATTACHARYYA, SUDEEPA)Jun 1, 2018 - May 31, 2019
    NIH/Nat. Inst. on Aging - Pass Through: Duke University
    Metabolic Networks and Pathways in Alzheimer’s Disease - Parent
    Role: Co-Investigator
    PTC2017-02     (JUN, SE-RAN)May 1, 2017 - Jun 30, 2018
    UAMS TRI Pilot Grant
    Genome-based mumps surveillance system using third generation sequencing technology
    Role: Principle Investigator

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    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions. Don't see publications published under other names? Login to add alternative names.
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    1. Adhikari B, Jun SR, Kwon YM, Kiess A, Adhikari P. Effects of housing types on egg production and cecal microbiota of two different strains of laying hens during the late production stage. Conference: Poultry Science Association (PSA) Annual Meeting. Montreal, Quebec, Canada. 2019.
    2. Alkam D, Jenjaroenpun P, Wongsurawat T, Udaondo Z, Patumcharoenpol P, Robeson M, Haselow D, Mason W, Nookaew I, Ussery D, Jun SR. Genomic characterization of mumps viruses from a large-scale mumps outbreak in Arkansas, 2016. Infect Genet Evol. 2019 Jul 15; 75:103965. PMID: 31319177.
      View in: PubMed
    3. Jenkins SV, Vang KB, Gies A, Griffin RJ, Jun SR, Nookaew I, Dings RP. American Association for Cancer Research. Sample storage conditions alter microbiome profiles - its potential relevance for cancer patients undergoing fecal microbial transplants. 2019; 79(13 Supplem):2823-2823.
    4. Schlum K, Jun SR, Udaondo Z, Ussery D, Emrich SJ. Improved bacteria population structure analysis on thousands of genomes using unsupervised methods. bioRxiv. 2019.
    5. Udaondo Z, Wongsurawat T, Jenjaroenpun P, Anderson C, Lopez J, Mohan M, Tytarenko R, Walker B, Nookaew I, Ussery D, Kothari A, Jun SR. Draft Genome Sequences of 48 Vancomycin-Resistant Enterococcus faecium Strains Isolated from Inpatients with Bacteremia and Urinary Tract Infection. Microbiol Resour Announc. 2019 Apr 11; 8(15). PMID: 30975810.
      View in: PubMed
    6. Jenkins SV, Vang KB, Gies A, Griffin RJ, Jun SR, Nookaew I, Dings RPM. Sample storage conditions induce post-collection biases in microbiome profiles. BMC Microbiol. 2018 12 27; 18(1):227. PMID: 30591021.
      View in: PubMed
    7. Wongsurawat T, Athipanyasilp N, Jenjaroenpun P, Jun SR, Kaewnapan B, Wassenaar TM, Leelahakorn N, Angkasekwinai N, Kantakamalakul W, Ussery DW, Sutthent R, Nookaew I, Horthongkham N. Case of Microcephaly after Congenital Infection with Asian Lineage Zika Virus, Thailand. Emerg Infect Dis. 2018 09; 24(9). PMID: 29985788.
      View in: PubMed
    8. Cabal A, Jun SR, Jenjaroenpun P, Wanchai V, Nookaew I, Wongsurawat T, Burgess MJ, Kothari A, Wassenaar TM, Ussery DW. Genome-Based Comparison of Clostridioides difficile: Average Amino Acid Identity Analysis of Core Genomes. Microb Ecol. 2018 Oct; 76(3):801-813. PMID: 29445826.
      View in: PubMed
    9. Timm CM, Carter KR, Carrell AA, Jun SR, Jawdy SS, Vélez JM, Gunter LE, Yang Z, Nookaew I, Engle NL, Lu TS, Schadt CW, Tschaplinski TJ, Doktycz MJ, Tuskan GA, Pelletier DA, Weston DJ. Abiotic Stresses Shift Belowground Populus-Associated Bacteria Toward a Core Stress Microbiome. mSystems. 2018 Jan-Feb; 3(1). PMID: 29404422.
      View in: PubMed
    10. Jun SR, Wassenaar TM, Wanchai V, Patumcharoenpol P, Nookaew I, Ussery DW. Suggested mechanisms for Zika virus causing microcephaly: what do the genomes tell us? BMC Bioinformatics. 2017 12 28; 18(Suppl 14):471. PMID: 29297281.
      View in: PubMed
    11. Alkam D, Wongsurawat T, Jenjaroenpun P, Connor S, Hobbs C, Wassenaar TM, Jun SR, Nookaew I, Ussery D. Three Complete Genome Sequences of Genotype G Mumps Virus from the 2016 Outbreak in Arkansas, USA. Genome Announc. 2017 Aug 10; 5(32). PMID: 28798162.
      View in: PubMed
    12. Jun SR, Nookaew I, Hauser L, Gorin A. Assessment of genome annotation using gene function similarity within the gene neighborhood. BMC Bioinformatics. 2017 Jul 19; 18(1):345. PMID: 28724412.
      View in: PubMed
    13. Linda J. Larson-Prior, Gohar Azhar, David G. Davila, Se-Ran Jun, Aaron S. Kemp, Intawat Nookaew, Jeanne Y. Wei, Trudy M. Wassenaar. Neurobiology of Sleep and Microbiomics in Aging. OBM Neurobiology. 2017; 1(2):doi:10.21926/obm.neurobiol.170.
    14. Trudy M. Wassenaar, Se-Ran Jun, Visanu Wanchai, Preecha Patumcharoenpol, Intawat Nookaew, Katrina Schlum, Michael R. Leuze, David W. Ussery. Insights from comparative genomics of the Genus Salmonella. Current Topics in Salmonella and Salmonellosis. 2017.
      View Publication
    15. Zhang Q, Jun SR, Leuze M, Ussery D, Nookaew I. Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer. Sci Rep. 2017 01 19; 7:40712. PMID: 28102365.
      View in: PubMed
    16. Leekitcharoenphon P, Hendriksen RS, Le Hello S, Weill FX, Baggesen DL, Jun SR, Ussery DW, Lund O, Crook DW, Wilson DJ, Aarestrup FM. Global Genomic Epidemiology of Salmonella enterica Serovar Typhimurium DT104. Appl Environ Microbiol. 2016 Apr; 82(8):2516-26. PMID: 26944846.
      View in: PubMed
    17. Jun SR, Wassenaar TM, Nookaew I, Hauser L, Wanchai V, Land M, Timm CM, Lu TY, Schadt CW, Doktycz MJ, Pelletier DA, Ussery DW. Diversity of Pseudomonas Genomes, Including Populus-Associated Isolates, as Revealed by Comparative Genome Analysis. Appl Environ Microbiol. 2016 01 01; 82(1):375-83. PMID: 26519390.
      View in: PubMed
    18. Timm CM, Campbell AG, Utturkar SM, Jun SR, Parales RE, Tan WA, Robeson MS, Lu TY, Jawdy S, Brown SD, Ussery DW, Schadt CW, Tuskan GA, Doktycz MJ, Weston DJ, Pelletier DA. Metabolic functions of Pseudomonas fluorescens strains from Populus deltoides depend on rhizosphere or endosphere isolation compartment. Front Microbiol. 2015; 6:1118. PMID: 26528266.
      View in: PubMed
    19. Jun SR, Robeson MS, Hauser LJ, Schadt CW, Gorin AA. PanFP: pangenome-based functional profiles for microbial communities. BMC Res Notes. 2015 Sep 26; 8:479. PMID: 26409790.
      View in: PubMed
    20. Jun SR, Leuze MR, Nookaew I, Uberbacher EC, Land M, Zhang Q, Wanchai V, Chai J, Nielsen M, Trolle T, Lund O, Buzard GS, Pedersen TD, Wassenaar TM, Ussery DW. Ebolavirus comparative genomics. FEMS Microbiol Rev. 2015 Sep; 39(5):764-78. PMID: 26175035.
      View in: PubMed
    21. Land M, Hauser L, Jun SR, Nookaew I, Leuze MR, Ahn TH, Karpinets T, Lund O, Kora G, Wassenaar T, Poudel S, Ussery DW. Insights from 20 years of bacterial genome sequencing. Funct Integr Genomics. 2015 Mar; 15(2):141-61. PMID: 25722247.
      View in: PubMed
    22. Land ML, Hyatt D, Jun SR, Kora GH, Hauser LJ, Lukjancenko O, Ussery DW. Quality scores for 32,000 genomes. Stand Genomic Sci. 2014; 9:20. PMID: 25780509.
      View in: PubMed
    23. Jun SR, Sims GE, Wu GA, Kim SH. Whole-proteome phylogeny of prokaryotes by feature frequency profiles: An alignment-free method with optimal feature resolution. Proc Natl Acad Sci U S A. 2010 Jan 05; 107(1):133-8. PMID: 20018669.
      View in: PubMed
    24. Sims GE, Jun SR, Wu GA, Kim SH. Whole-genome phylogeny of mammals: evolutionary information in genic and nongenic regions. Proc Natl Acad Sci U S A. 2009 Oct 06; 106(40):17077-82. PMID: 19805074.
      View in: PubMed
    25. Wu GA, Jun SR, Sims GE, Kim SH. Whole-proteome phylogeny of large dsDNA virus families by an alignment-free method. Proc Natl Acad Sci U S A. 2009 Aug 04; 106(31):12826-31. PMID: 19553209.
      View in: PubMed
    26. Sims GE, Jun SR, Wu GA, Kim SH. Alignment-free genome comparison with feature frequency profiles (FFP) and optimal resolutions. Proc Natl Acad Sci U S A. 2009 Feb 24; 106(8):2677-82. PMID: 19188606.
      View in: PubMed
    27. Kim SH, Hou J, Jun SR, Sims GE, Choi IG. Structure, function, and evolution mapping of the protein structure universe. Federation of American Societies for Experimental Biology. 2007; 21(6):A1003-A1003.
    28. Se-Ran Jun, Sungkwon Kang, YoungHoon Kwon. A direct solver for the legendre tau approximation for the two-dimensional poisson problem . Journal of Applied Mathematics & Computing. 2007; 23(1-2):25-42.
    29. Kim SH, Hou J, Jun SR, Choi IG. A global view of the protein structure universe and evolution of protein structure families. Federation of American Societies for Experimental Biology. 2006; 20(4):A530-A530.
    30. Hou J, Jun SR, Zhang C, Kim SH. Global mapping of the protein structure space and application in structure-based inference of protein function. Proc Natl Acad Sci U S A. 2005 Mar 08; 102(10):3651-6. PMID: 15705717.
      View in: PubMed
    31. Se-Ran Jun, Sung-Kwon Kang, and YongHoon Kwon. A spectral approximation scheme for the Stokes equations. Mathematical and Computer Modelling. 2004; 40:535-552.
    32. Se-Ran Jun, Sung-Kwon Kang, and YongHoon Kwon. Legendre Tau method for the 2-D Stokes problem. Journal of the Korean Society for Industrial and Applied Mathematics. 2000; 4:111-133.
    33. Se-Ran Jun, Sung-Kwon Kang, and YongHoon Kwon. A variational spectral method for the two-dimensional Stokes problem. Computers and Mathematics with Applications. 1998; 35(4):1-17.
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