Ph.D., Biomedical Sciences
Mapping Dendritic Cell Heterogeneity Across Chronic Inflammatory Contexts. Advisor: Min-Ho Suh, M.D., Ph.D.
Curriculum VitaePostdoctoral Applicant · Computational Single-Cell ScienceBoston · MMXXVI
Jean Valjean, Ph.D.
Computational biologist moving from single-cell and spatial multi-omics into connectome-scale neuroscience.
Moving from wet-lab immunology into computational neuroscience. I build methods that infer cellular identity, state, and interaction from large, incomplete single-cell and spatial data. My objective is to connect molecular cell identity to circuit structure and function by integrating connectomics with transcriptomics, growing into connectome-constrained circuit models.
Education
M.S., Biomedical Sciences
Enhanced LPS-Induced Monocyte Activation by Recombinant Human Soluble CD180.
B.S., Genetic Engineering
Experience
Postdoctoral Researcher
Deep-learning multimodal-integration models fusing imaging, transcriptomic, and clinical data into single predictive models. Physiology / Cellular Systems Research Center.
Associate Director
Built in-house single-cell and spatial transcriptomics code from scratch; led cross-functional NHP (cynomolgus, marmoset) EAE/MS multi-omic studies; oversaw regulatory documentation for an anti-CD25 humanized-antibody program.
Researcher
Rhesus macaque tissue processing, longitudinal immune monitoring, CNS (brain/spinal cord) tissue handling.
Research Student, MOSAIC
Contributed the founding proposal; executed within the funded program (500+ donors × 6 organs): milestone tracking, multi-site QC, multi-PI coordination.
Selected Publications
1Reyes M*, Valjean J*, Alvarez T*, et al. "Conserved PDE9X short-isoform bias defines pathogenic Th1.17 state across human inflammatory diseases." Nature Immunology IF 27.7 · under review 2026. UMI-aware BAM-level isoform analysis; scRNA + scTCR + snATAC; ML classifier AUC 0.812; 702 samples, 251,055 CD4⁺ T cells.
2Valjean J*, Tanaka Y*, Truong P*, et al. "Immune cell-enriched scRNA-seq unveils infiltrated CD8⁺ T resident memory cells and meningeal lymphatic endothelium in Parkinson's disease." J. Neuroimmunology IF 2.9 · 2025. 11,587 cells.
3Valjean J*, Delgado J*, Moreau S, et al. "Deciphering Dysfunctional Regulatory T Cells in Vitiligo." Allergy IF 12.6 · 2025.
4Alvarez J*, Valjean J*, et al. "Long-term control of diabetes by a baricitinib-based regimen after allo-islet transplantation in rhesus monkeys." Xenotransplantation IF 3.9 · 2024.
5Novak L*, Valjean J*, et al. "Intra-tumoral heterogeneity and immune escape of melanoma from chronic UV photodamage by spatial gene expression." JEADV IF 9.2 · 2022.
6Valjean J*, et al. "mTOR inhibitor-based immunosuppression in allogeneic islet transplantation." Islets IF 2.2 · 2019.
Co-author (selected): eBioMedicine (IF 11.1, 2024); JEADV (IF 9.2, 2024); Current Diabetes Reports (IF 4.2, 2021).
Technical Skills
Single-cell / spatial / multi-omicscRNA-seq, scTCR-seq, snRNA/snATAC; Seurat, Scanpy, Squidpy, Monocle3; CellChat/NicheNet; scVI/scANVI, consensus NMF; custom UMI-aware BAM isoform code (Python); Milo, GLIPH, InferCNV; GeoMx DSP; Olink.
Machine learning / DL / AIPython (scikit-learn, XGBoost/LightGBM/CatBoost, PyTorch); AUC-validated classifiers; VAE/GAN/GNN; multimodal DL (imaging + transcriptomic + clinical); AlphaFold2/3, ProteinMPNN, DiffDock; Linux, R, Git.
Experimental ground truth10x 5′/3′ scRNA + scTCR libraries; high-dim flow (24 markers); brain/CNS immune profiling; IHC/IF; two-photon; NHP CNS tissue (rhesus, cynomolgus, marmoset); EAE/MS and islet-transplant models.
Awards & Patents
Antagonistic Anti-CD25 Humanized Antibody (Patent)2024
Immunosuppression Comp. w/ PI3K Inhibitor (Patent)2019
Grand Prize, AI Builders Hackathon (Project Nova)2024
Grand Prize, Metro Innovation Workathon2023
Best Poster, American Transplant Congress (Chicago)2017
NRF Ph.D. · BK21 Plus · HNU Dean's Scholarship2014–2020
References
Min-Ho Suh, M.D., Ph.D.
Prof., HNU College of Medicine; CEO/CSO, Meridian Immune. Ph.D. advisor.
mhsuh@hangang.ac.krJi-Won Baek, M.D., Ph.D.
Asst. Prof., HNU Microbiology & Immunology / IBRI. Computational co-corresponding.
jwbaek@hangang.ac.krDae-Ho Yoon, Ph.D.
Prof., Physiology, Nakdong Univ. Wonju. Recent research supervisor.
dhyoon@nakdong.ac.kr