Jiawei Xing

AI for Science | Computational Biology | Probability

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Education Background

2019 - 2023: The Ohio State University. PhD, Microbiology

2015 - 2019: Beijing Normal University. BS, Biological Sciences

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Research Experiences

2024.3 - 2026.7: Postdoctoral Fellow at Cold Spring Harbor Laboratory

• Advisor: Dr. Adam Siepel
• Probabilistic modeling on metastatic cancer lineage-tracing and single-cell transcriptomics

2021.1 - 2023.12: Graduate research assistant at The Ohio State University

• Advisor: Dr. Igor Jouline
• Understanding protein structures and evolution using phylogenetic analyses, biological networks, clustering algorithms, and hidden Markov models
• Studying ligand-protein interactions using molecular docking and virtual ligand screening
• Developing computational tools for bioinformatic analysis

2018.7 - 2018.10: Summer intern at IMCB, A*STAR, Singapore

• Advisor: Dr. Yue Wang
• Genome-wide screening of drug resistance genes in Candida albicans

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Teaching Experience

2019.8 - 2020.12: Graduate teaching assistant at The Ohio State University

• Professor: Dr. Mette Ibba
• Labs for Basic and Practical Microbiology

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Posters and Presentations

• Probabilistic Modeling in Genomics. Talk. UC Berkeley, CA. Mar 2026
• The 4th Nutshell Symposium. Talk. Columbia University, NY. Nov 2025
• Biology of Cancer: Microenvironment and Metastasis. Poster. Cold Spring Harbor, NY. Sep 2025
• CSHL QB/AI In-house Seminar. Talk. Cold Spring Harbor, NY. Jun 2025
• Biology of Genomes. Talk. Cold Spring Harbor, NY. May 2025
• Probabilistic Modeling in Genomics. Poster. Cold Spring Harbor, NY. Mar 2025
• CSHL Cancer In-house Seminar. Talk. Cold Spring Harbor, NY. Jan 2025
• Bacterial Locomotion and Signal Transduction (BLAST) Conference. Talk (Best talk award for graduate students). Charleston, SC. Jan 2023
• OSU Microbiology Department Annual Symposium. Talk. Columbus, OH. Dec 2022
• Gordon Research Conference: Sensory Transduction in Microorganisms. Poster. Ventura, CA. Sep 2022
• Bacterial Locomotion and Signal Transduction (BLAST) Conference. Poster. Online. Jan 2021
• International Genetically Engineered Machine (iGEM) Competition. Talk and Poster. Boston, MA. Nov 2017

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Certificates and Awards

• CS50x: Introduction to Computer Science
• CS50W: Web Programming with Python and JavaScript
• CS50T: Understanding Technology
• CS50AI: Introduction to Artificial Intelligence with Python
• CS50P: Introduction to Programming with Python
• Machine Learning
• AI Agents Intensive Course with Google and Kaggle
• 2023 BLAST Board of Directors Award
• iGEM 2017 Bronze Medal

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Service

• Journal reviewer: Discover Neuroscience, Journal of Molecular Biology, Journal of Bacteriology
• Conference reviewer: Machine Learning in Computational Biology, Gen2 Workshop at ICLR 2026, AI4S Workshop at ICML 2026

Structure and evolution of protein sensory domains

Jouline lab

Probabilistic modeling of single-cell omics in cancer evolution

Siepel lab

Google Scholar

1. Xing J, Staklinski SJ, Liu Z, Nowak D, Siepel A. Lineage-aware stochastic modeling reveals gene-expression dynamics in development and disease. bioRxiv. doi:10.64898/2026.06.25.734628.
2. Xing J. TRIAGE: An AI Scientist for Adversarial Target Falsification. ICML 2026 AI for Science Workshop. https://openreview.net/forum?id=YYmB6Zi088
3. Xing J, Staklinski SJ, Siepel AC. VOUS: Variational Ornstein-Uhlenbeck Stochastics Linking Single-Cell Lineage Tracing with Dynamic Gene Expression. ICLR 2026 MLGenX Workshop. https://openreview.net/forum?id=Jsn0fGm669
4. Deshpande M*, Xing J*, Gumerov VM, Crane BR, Zhulin IB. A bacterial NO-binding sensor domain evolved through acquisition of a cytochrome-derived c-type heme-binding motif. bioRxiv. doi:10.64898/2026.02.01.703092.
5. Sankhe GD, Xing J, Xiao M, Buglino JA, Li H, Zhulin IB, Glickman MS. Ligand binding represses bacterial histidine kinase activity by inhibiting its dimerization. FEBS J. Published online June 16, 2026. doi:10.1111/febs.70621.
6. Staklinski SJ, Scheben A, Brault LM, Hassett R, Serio RN, Xing J, Nowak DG, Siepel A. Bayesian inference of tissue-migration histories in metastatic cancer from cell-lineage tracing data. Cell Genom. Published online March 30, 2026. doi:10.1016/j.xgen.2026.101193
7. Stanton V, Himes B, Mejia-Santana A, Eppinger M, Romo J, Xing J, Zhulin IB, Cai H, Wang Y, Inniss Nl, Minasov G, Satchell KJF, Klose KE. The PAS domain of the polarly localized histidine kinase FlrB in Vibrio cholerae controls class III flagellar transcription and contributes to intestinal colonization. mBio. 2025;16(11):e0237925. doi:10.1128/mbio.02379-25.
8. Velando F*, Xing J*, Genova R*, Cerna-Vargas JP, Vázquez-Santiago R, Matilla MA, Zhulin IB, Krell T. Chemoreceptor family in plant-associated bacteria responds preferentially to the plant signal molecule glycerol 3-phosphate. Genome Biol. 2025;26(1):260. doi:10.1186/s13059-025-03703-6
9. Ju X, Lee S, Ågren R, Machado LC, Xing J, Azama C, Roy MC, Endo T, Huttner W, Siepel A, Fukunaga I, Zeberg H, Pääbo S. The activity and expression of adenylosuccinate lyase were reduced during modern human evolution, affecting brain and behavior. Proc. Natl. Acad. Sci. U.S.A. 2025;122(32)e2508540122. doi:10.1073/pnas.2508540122.
10. Tajima Y, Vargas C, Ito K, Wang W, Luo JD, Xing J, Kuru N, Machado LC, Siepel A, Carroll TS, Jarvis ED, Darnell RB. A humanized NOVA1 splicing factor alters mouse vocal communications. Nat. Commun. 2025;16(1):1542. doi:10.1038/s41467-025-56579-2
11. Monteagudo-Cascales E*, Gavira JA*, Xing J*, Velando F, Matilla MA, Zhulin IB, Krell T. Bacterial sensor evolved by decreasing complexity. Proc. Natl. Acad. Sci. U.S.A. 2025;122(5)e2409881122. doi:10.1073/pnas.2409881122.
12. Ruiz N, Xing J, Zhulin IB, Brautigam CA, Hendrixson DR. The Campylobacter jejuni BumS sensor phosphatase detects the branched short-chain fatty acids isobutyrate and isovalerate as direct cues for signal transduction. mBio. 2025;16(2):e0327824. doi:10.1128/mbio.03278-24.
13. Xing J, Gumerov VM, Zhulin IB. Origin and functional diversification of PAS domain, a ubiquitous intracellular sensor. Sci Adv. 2023;9(35):eadi4517. doi:10.1126/sciadv.adi4517.
14. Demey LM*, Gumerov VM*, Xing J, Zhulin IB, DiRita VJ. Transmembrane Transcription Regulators Are Widespread in Bacteria and Archaea. Microbiol Spectr. 2023;11(3):e0026623. doi:10.1128/spectrum.00266-23.
15. Xing J, Gumerov VM, Zhulin IB. Photoactive Yellow Protein Represents a Distinct, Evolutionarily Novel Family of PAS Domains. J Bacteriol. 2022;204(11):e0030022. doi:10.1128/jb.00300-22. Editor's Pick.

* Equal contributions

Email: jiawei.xing@outlook.com