Se‐Ran Jun

Federal Grant PI High Impact

Associate Professor

UAMS

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); University of Arkansas Medical Center (2022); Molecular Microbiology and Genomics Consultants (Germany) (2017–2018); Hanyang University Seoul 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)

Biomedical Informatics, College of Medicine

22 h-index 84 pubs 2,916 cited

Research Areas

Biomedical Subjects

Links

ORCID Lab Website UAMS TRI Profile

OverviewAI-generated summary

Se-Ran Jun's research focuses on the application of computational and bioinformatics approaches to understand biological systems, with a particular emphasis on genomics, phylogenetics, and proteome analysis. Her work has explored diverse areas, including bacterial and viral genome sequencing, the development of alignment-free methods for genome comparison, and the global mapping of protein structure space for functional inference.

Jun's federal funding includes a $190,000 award from the NIH/National Institute of Allergy and Infectious Diseases for developing a real-time, high-resolution method for genomic surveillance of ESKAPE pathogens. Her scholarly output is marked by a h-index of 22 and over 2,800 citations across 84 publications. She collaborates with researchers at the University of Arkansas for Medical Sciences, including Kaleb Z. Abram, En Huang, Ping-Ching Hsu, and Sun Hee Moon, with whom she has co-authored multiple publications.

Metrics

h-index: 22
Publications: 84
Citations: 2,916

Positions

Associate Professor 2023–present

University of Arkansas for Medical Sciences Biomedical Informatics, College of Medicine Institutional directory
Assistant Professor 2016–2023

University of Arkansas for Medical Sciences Biomedical Informatics ORCID

Selected Publications

First Report of a Carbapenemase Gene blaOXA-181 Harbored in a Conjugative Plasmid in Kluyvera sichuanensis Isolated from Spinach (2026)

SSRN Electronic Journal DOI OpenAlex
First report of a carbapenemase gene blaOXA-181 harbored in a conjugative plasmid in Kluyvera sichuanensis isolated from spinach (2026)

International Journal of Food Microbiology DOI OpenAlex
Effect of complement 3/5 knockout on renal proteomics landscape after ischemia and reperfusion injury in rats (2026)

Physiological Reports DOI OpenAlex
Real-time Nanopore de novo assembly of ESKAPE pathogens: Implications for antibiotic stewardship (2026)

DOI OpenAlex
Metabolic phenotypes of doxorubicin-induced cardiotoxicity among patients with breast cancer (2026)

Metabolomics DOI OpenAlex
Heat shock protein 72 is a druggable target during cold storage to improve graft outcome after kidney transplantation (2026)

American Journal of Physiology-Renal Physiology DOI OpenAlex
Comprehensive analyses of carbapenem-resistant and ESBL-producing bacteria in fresh vegetables and their resistome in the United States (2026)

Food Research International DOI OpenAlex
Uncovering a novel cell death-independent mechanism of acute anthracycline toxicity in human cardiac fibroblasts (2026)

Physiology DOI OpenAlex
Sex-Specific Adipose Transcriptomic Reprogramming Drives Early Inter-Organ Remodeling in Heart and Liver Under Nutrient Excess (2026)

Physiology DOI OpenAlex
Functional dissection of the genome of Salmonella Typhimurium to understand its tolerance to the bactericidal activity of peracetic acid (2026)

Journal of Applied Microbiology DOI OpenAlex
3-D biomechanics and epigenomics reveal atypical fibroblast responses in cardiometabolic disease (2025)

American Journal of Physiology-Heart and Circulatory Physiology 2 citations DOI OpenAlex
Abstract C089: Modulation of DNA methylation by plasma folate and heavy metals in relation to prostate cancer aggressiveness (2025)

Cancer Epidemiology Biomarkers & Prevention DOI OpenAlex
Simulating Cardiometabolic Disease in a 3D-Microenvironment: Human Cardiac Fibroblast Response to Nutritional Stress (2025)

Physiology DOI OpenAlex
A narrative review of metabolomics approaches in identifying biomarkers of doxorubicin-induced cardiotoxicity (2025)

Metabolomics 13 citations DOI OpenAlex
Relevance of Cellular Homeostasis-Related Gene Expression Signatures in Distinct Molecular Subtypes of Breast Cancer (2025)

Biomedicines 1 citation DOI OpenAlex

View all publications on OpenAlex →

Federal Grants 1 $190,000 total

NIH Contact PI May 2022 - Apr 2025

Real-Time High Resolution Method for Genomic Surveillance of ESKAPE pathogens

National Institute of Allergy and Infectious Diseases $190,000 R21

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