Mst Shamima Khatun, Ph.D.
Assistant Professor
Biography
Dr. Shamima Khatun is an Assistant Professor of Bioinformatics at Tulane’s Center for Translational Research in Infection & Inflammation (CTRII). She holds a Ph.D. in computational biology from Kyushu Institute of Technology and possesses a strong interdisciplinary foundation in Statistics, Computer Science, and Bioinformatics.
Before her current role, Dr. Khatun served as an Instructor of Bioinformatics at CTRII, where she conducted research spanning bulk RNA-seq, single-cell RNA-seq, single-cell ATAC-seq, Visium HD spatial transcriptomics, and large-scale data analytics. Her work leverages artificial intelligence and machine learning, leading to the development of eight standalone bioinformatics web-based tools.
To date, Dr. Khatun has published 36 peer-reviewed journal articles, which have collectively garnered over 1,154 citations as of July 2025, resulting in an H-index of 18 and an i10-index of 26. Currently, she provides comprehensive bioinformatics and biostatistics support within the Department of Medicine’s core facility, collaborating with a multidisciplinary team to advance translational research projects.
Publications
1. Khatun MS, Qin X, Pociask DA, Kolls JK*. SARS-CoV2 Endotheliopathy: Insights from Single Cell RNAseq. American Journal of Respiratory and Critical Care Medicine. 2022 Nov 1;206(9):1178-1179. doi: 10.1164/rccm.202206-1105LE. PMID: 35839476; PMCID: PMC9704844.
2. Khatun MS, Remcho TP, Qin X, Kolls JK*. Cell-intrinsic and -extrinsic effects of SARS-CoV-2 RNA on pathogenesis: single-cell meta-analysis. mSphere. 2023 Oct 24;8(5):e0037523. doi: 10.1128/msphere.00375-23. Epub 2023 Sep 22. PMID: 37737611; PMCID: PMC10597400.
3. Wang C#, Khatun MS#, Zhang Z, Allen MJ, Chen Z, Ellsworth CR, Currey JM, Dai G, Tian D, Bach K, Yin XM, Traina-Dorge V, Rappaport J, Maness NJ, Blair RV, Kolls JK, Pociask DA, Qin X*. COVID-19 and influenza infections mediate distinct pulmonary cellular and transcriptomic changes. Communications Biology. 2023 Dec 13;6(1):1265. doi: 10.1038/s42003-023-05626-z. PMID: 38092883; PMCID: PMC10719262.
4. Wang C, Khatun MS, Ellsworth CR, Chen Z, Islamuddin M, Nisperuza Vidal AK, Afaque Alam M, Liu S, Mccombs JE, Maness NJ, Blair RV, Kolls JK, Qin X*. Deficiency of Tlr7 and Irf7 in mice increases the severity of COVID-19 through the reduced interferon production. Communications Biology. 2024 Sep 17;7(1):1162. doi: 10.1038/s42003-024-06872-5. PMID: 39289468; PMCID: PMC11408513.
5. Currey J, Ellsworth C, Khatun MS, Wang C, Chen Z, Liu S, Midkiff C, Xiao M, Ren M, Liu F, Elgazzaz M, Fox S, Maness NJ, Rappaport J, Lazartigues E, Blair R, Kolls JK, Mauvais-Jarvis F, Qin X*. Upregulation of inflammatory genes and pathways links obesity to severe COVID-19. BBA-Molecular Basis of Disease. 2024 Oct;1870(7):167322. doi: 10.1016/j.bbadis.2024.167322. Epub 2024 Jun 26. PMID: 38942338; PMCID: PMC11330358.
For more publications, visit Google Scholar: https://scholar.google.com/citations?user=53CnxM0AAAAJ&hl=en
