Se‐Ran Jun
Associate Professor
Also affiliated: Kunming University of Science and Technology (2018); Gachon University (2022); Oak Ridge National Laboratory (2014–2018); Siriraj Hospital (2018); Lawrence Berkeley National Laboratory (2005); Mahidol University (2018); Molecular Microbiology and Genomics Consultants (Germany) (2017–2018); University of Applied Management Studies (2022); Winthrop Rockefeller Foundation (2019); St Mary's Hospital (2022); Joint Institute for Computational Sciences (2015); University of Tennessee at Knoxville (2015); University of California, Davis (2026); University of California, Berkeley (2004–2009)
Faculty Researcher
Biomedical Informatics, College of Medicine
Research Areas
Biomedical Subjects
Links
Biography and Research Information
OverviewAI-generated summary
Se-Ran Jun's research focuses on the genomic and molecular mechanisms underlying antibiotic resistance in bacteria. She investigates the genetic factors, including insertion sequences and mobile elements, that contribute to the emergence and spread of resistance to critical antibiotics like carbapenems and polymyxins in pathogens such as *Acinetobacter baumannii* and *Enterobacterales*. Her work also explores resistance mechanisms to newer agents like cefiderocol, examining mutations in genes responsible for drug uptake and modification.
Dr. Jun leads a National Institutes of Health (NIH) funded project focused on developing real-time, high-resolution methods for genomic surveillance of ESKAPE pathogens, a group of bacteria notorious for causing difficult-to-treat infections. This research aims to enhance public health efforts by providing faster insights into pathogen evolution and resistance patterns.
Her scholarly contributions include 81 publications, with an h-index of 22 and over 2,800 citations. She has collaborated extensively with researchers at the University of Arkansas for Medical Sciences, including Kaleb Z. Abram, En Huang, Ping-Ching Hsu, and Sun Hee Moon. Dr. Jun's research is supported by a $190,000 federal grant from the National Institute of Allergy and Infectious Diseases.
Metrics
- h-index: 22
- Publications: 85
- Citations: 2,863
Selected Publications
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First Report of a Carbapenemase Gene blaOXA-181 Harbored in a Conjugative Plasmid in Kluyvera sichuanensis Isolated from Spinach (2026)
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First report of a carbapenemase gene blaOXA-181 harbored in a conjugative plasmid in Kluyvera sichuanensis isolated from spinach (2026)
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Effect of complement 3/5 knockout on renal proteomics landscape after ischemia and reperfusion injury in rats (2026)
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Real-time Nanopore de novo assembly of ESKAPE pathogens: Implications for antibiotic stewardship (2026)
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Metabolic phenotypes of doxorubicin-induced cardiotoxicity among patients with breast cancer (2026)
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Heat shock protein 72 is a druggable target during cold storage to improve graft outcome after kidney transplantation (2026)
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Comprehensive analyses of carbapenem-resistant and ESBL-producing bacteria in fresh vegetables and their resistome in the United States (2026)
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Uncovering a novel cell death-independent mechanism of acute anthracycline toxicity in human cardiac fibroblasts (2026)
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Sex-Specific Adipose Transcriptomic Reprogramming Drives Early Inter-Organ Remodeling in Heart and Liver Under Nutrient Excess (2026)
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Functional dissection of the genome of <i>Salmonella</i> Typhimurium to understand its tolerance to the bactericidal activity of peracetic acid (2026)
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3-D biomechanics and epigenomics reveal atypical fibroblast responses in cardiometabolic disease (2025)
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Abstract C089: Modulation of DNA methylation by plasma folate and heavy metals in relation to prostate cancer aggressiveness (2025)
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Simulating Cardiometabolic Disease in a 3D-Microenvironment: Human Cardiac Fibroblast Response to Nutritional Stress (2025)
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A narrative review of metabolomics approaches in identifying biomarkers of doxorubicin-induced cardiotoxicity (2025)
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Relevance of Cellular Homeostasis-Related Gene Expression Signatures in Distinct Molecular Subtypes of Breast Cancer (2025)
Federal Grants 1 $190,000 total
Real-Time High Resolution Method for Genomic Surveillance of ESKAPE pathogens
Research Interests
I am a data scientist and bioinformatician with a strong background in mathematics. My collaborative research projects focus on the analysis and integration of multiomics data—including genomics, microbiome, transcriptomics, epigenomics, metabolomics, proteomics—to study disease and environment and to identify biomarkers using statistical learning, machine learning, and deep learning methodologies. In parallel, I conduct pathogen surveillance research, leveraging genomic and microbiome data integrated with electronic health records (EHRs) to monitor and track infectious disease and understand the mechanisms and dissemination of antibiotic resistance, with an emphasis on two clinical applications: infection prevention and antibiotic stewardship. My wet laboratory activities focus on real-time surveillance of antimicrobial-resistant pathogens, particularly in immunocompromised patient populations.; Machine Learning and Statistical Learning; Microbial Informatics and Data Science; Pathogen Surveillance and Epidemiology; Microbial Genomics and Microbiome Science; Computational Systems Biology; Infection Prevention and Antimicrobial Stewardship; Oxford Nanopore Sequencing
Grants & Funding
As listed on this researcher's institutional profile. Federal awards with verified records are shown above.
- Cefiderocol heteroresistance and resistance in carbapenem-resistant pathogens UAMS VCRI Pioneer Award Co-Investigator
- Center for Microbial Pathogenesis and Host inflammatory responses NIH/NIGMS Co-Investigator
- Comparative WGS analysis of the two commercial live Salmonella vaccine strains Zoetis via University of Arkansas Principle Investigator
- The epigenomic stress-induced mechanisms in Daptomycin & Vancomycin-Resistant Enterococcus faecium UAMS COM Barton Principle Investigator
- In vivo essential genome of Salmonella NIAID - pass through University of Arkansas Principal Investigator
- Development of a minimally invasive biomarker assay to detect delayed radiation injury NIH/Nat. Inst. of Allergy & Infectious Diseases Co-Investigator
- Targeting heat shock protein 72 to improve renal function after transplantation NIDDK Co-Investigator
- Genome-based mumps surveillance system using third generation sequencing technology UAMS Intramural Grant (CTSA) Principal Investigator
- Assessment of antibiotic resistance in fresh vegetables from farm to fork USDA Co-Investigator
- Defining the role of post-translational regulation by extracellular proteases in the pathogenesis of Staphylococcus aureus osteomyelitis NIAID Co-Investigator
- Using genomics to track carbapenem-resistant Enterobacteriaceae linking rural and urban health in Arkansas UAMS TRI Biomedical Informatics Pilot Principle Investigator
- Molecular Epidemiology of Vancomycin Resistant Enterococcus faecium in Cancer Patients UAMS COM Barton Pilot Principle Investigator
- RII Track-1: Data analytics that are Robust and Trusted (DART): From Smart Curation to Socially Aware Decision Making NSF Co-Investigator
- Metabolic Networks and Pathways in Alzheimer’s Disease - Parent NIH/Nat. Inst. on Aging - Pass Through Duke University Other
- Data Governance in Genomic Pathogen Surveillance NSF via Arkansas Economic Development Commission Principle Investigator
- In vivo essential genome of Salmonella NIH/Nat. Inst. of Allergy & Infectious Diseases via University of Arkansas at Fayetteville Principal Investigator
- Mechanisms of cefiderocol nonsusceptibility and resistance evolution in carbapenem resistant pathogens NIAID Co-Investigator
- Center for Studies of Host Response to Cancer Therapy NIH Co-Investigator
Collaboration Network
Top Collaborators
- Isolation of AmpC- and extended spectrum β-lactamase-producing Enterobacterales from fresh vegetables in the United States
- Cefiderocol heteroresistance in Klebsiella pneumoniae is linked to mutations in the siderophore receptor cirA and β-lactamase activities
- Insertion sequences and other mobile elements associated with antibiotic resistance genes in Enterococcus isolates from an inpatient with prolonged bacteraemia
- Pseudomonas aeruginosa Pangenome: Core and Accessory Genes of a Highly Resourceful Opportunistic Pathogen
- Isolation and characterisation of carbapenemase-producing and polymyxin B-resistant Enterobacter bugandensis from a vegetable
Showing 5 of 12 shared publications
- Isolation of AmpC- and extended spectrum β-lactamase-producing Enterobacterales from fresh vegetables in the United States
- Insertion sequences and other mobile elements associated with antibiotic resistance genes in Enterococcus isolates from an inpatient with prolonged bacteraemia
- Pseudomonas aeruginosa Pangenome: Core and Accessory Genes of a Highly Resourceful Opportunistic Pathogen
- Top-Down Genomic Surveillance Approach To Investigate the Genomic Epidemiology and Antibiotic Resistance Patterns of Enterococcus faecium Detected in Cancer Patients in Arkansas
- Genomic Distance-based Rapid Uncovering of Microbial Population Structures (GRUMPS): a reference free genomic data cleaning methodology
Showing 5 of 8 shared publications
- Insertion sequences and other mobile elements associated with antibiotic resistance genes in Enterococcus isolates from an inpatient with prolonged bacteraemia
- Top-Down Genomic Surveillance Approach To Investigate the Genomic Epidemiology and Antibiotic Resistance Patterns of Enterococcus faecium Detected in Cancer Patients in Arkansas
- Complete Genome Sequence of a Non-Carbapenemase-Producing Carbapenem-Resistant Providencia rettgeri Strain Isolated from a Clinical Urine Sample in Arkansas
- Insertion sequences associated with antibiotic resistance genes in <i>Enterococcus</i> isolates from an inpatient with prolonged bacteremia
- Top-Down Genomic Surveillance Approach to Investigate the Genomic Epidemiology and Antibiotic Resistance Patterns of <i>Enterococcus faecium</i> Detected in Cancer Patients in Arkansas
- Isolation of AmpC- and extended spectrum β-lactamase-producing Enterobacterales from fresh vegetables in the United States
- Treatment-emergent cefiderocol resistance in carbapenem-resistant <i>Acinetobacter baumannii</i> is associated with insertion sequence IS <i>Aba36</i> in the siderophore receptor <i>pirA</i>
- Cefiderocol heteroresistance in Klebsiella pneumoniae is linked to mutations in the siderophore receptor cirA and β-lactamase activities
- Isolation and characterisation of carbapenemase-producing and polymyxin B-resistant Enterobacter bugandensis from a vegetable
- A narrative review of metabolomics approaches in identifying biomarkers of doxorubicin-induced cardiotoxicity
- Plasma Metabolomics in a Nonhuman Primate Model of Abdominal Radiation Exposure
- Long-term effects of combined exposures to simulated microgravity and galactic cosmic radiation on the mouse lung: sex-specific epigenetic reprogramming
- Systematic review of metabolomics approaches in identifying biomarkers of chemotherapy-induced cardiotoxicity among breast cancer patients
- A narrative review of metabolomics approaches in identifying biomarkers of doxorubicin-induced cardiotoxicity
- Abstract 3680: Distinctive metabolomics profiles associated with African American current smokers who have high aggressive prostate cancer
- Systematic review of metabolomics approaches in identifying biomarkers of chemotherapy-induced cardiotoxicity among breast cancer patients
- Abstract 3625: Metabolic phenotypes of doxorubicin-induced cardiotoxicity in breast cancer patients
- Isolation of AmpC- and extended spectrum β-lactamase-producing Enterobacterales from fresh vegetables in the United States
- Isolation and characterisation of carbapenemase-producing and polymyxin B-resistant Enterobacter bugandensis from a vegetable
- Complete Genome Sequence of a Non-Carbapenemase-Producing Carbapenem-Resistant Providencia rettgeri Strain Isolated from a Clinical Urine Sample in Arkansas
- A narrative review of metabolomics approaches in identifying biomarkers of doxorubicin-induced cardiotoxicity
- Systematic review of metabolomics approaches in identifying biomarkers of chemotherapy-induced cardiotoxicity among breast cancer patients
- Abstract 3625: Metabolic phenotypes of doxorubicin-induced cardiotoxicity in breast cancer patients
- Cold Storage Followed by Transplantation Induces Immunoproteasome in Rat Kidney Allografts: Inhibition of Immunoproteasome Does Not Improve Function
- Cold Storage Disrupts the Proteome and Phosphoproteome Landscape in Rat Kidney Transplants
- Mechanism of Impaired Protein Homeostasis in Kidney Grafts Following Cold Storage and Transplantation (Abstract ID: 162640)
- Isolation of AmpC- and extended spectrum β-lactamase-producing Enterobacterales from fresh vegetables in the United States
- Isolation and characterisation of carbapenemase-producing and polymyxin B-resistant Enterobacter bugandensis from a vegetable
- Isolation of AmpC- and extended spectrum β-lactamase-producing Enterobacterales from fresh vegetables in the United States
- Isolation and characterisation of carbapenemase-producing and polymyxin B-resistant Enterobacter bugandensis from a vegetable
- Abstract 3680: Distinctive metabolomics profiles associated with African American current smokers who have high aggressive prostate cancer
- Abstract C089: Modulation of DNA methylation by plasma folate and heavy metals in relation to prostate cancer aggressiveness
- Treatment-emergent cefiderocol resistance in carbapenem-resistant <i>Acinetobacter baumannii</i> is associated with insertion sequence IS <i>Aba36</i> in the siderophore receptor <i>pirA</i>
- Cefiderocol heteroresistance in Klebsiella pneumoniae is linked to mutations in the siderophore receptor cirA and β-lactamase activities
- A narrative review of metabolomics approaches in identifying biomarkers of doxorubicin-induced cardiotoxicity
- Systematic review of metabolomics approaches in identifying biomarkers of chemotherapy-induced cardiotoxicity among breast cancer patients
- Cold Storage Followed by Transplantation Induces Immunoproteasome in Rat Kidney Allografts: Inhibition of Immunoproteasome Does Not Improve Function
- Cold Storage Disrupts the Proteome and Phosphoproteome Landscape in Rat Kidney Transplants
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