Postdoctoral applicant · single-cell / spatial multi-omics · ML / DL
Bucky Barnes, Ph.D.
Computational biologist moving from single-cell and spatial multi-omics into connectome-scale neuroscience.
LocationBoston, MA 02135
Phone(555) 019-2847
Emailbucky.barnes@example.com
Webbuckybarnes.example.com/cv

Profile

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. Research objective: connect molecular cell identity to circuit structure and function by integrating connectomics with transcriptomics, growing into connectome-constrained circuit models.

Publications

18Total papers
17Peer-reviewed
6First / co-first
1Under review

Experience

Postdoctoral Researcher
2025–2026
Nakdong University Wonju College of Medicine · Physiology / Cellular Systems Research Center
Developed deep-learning multimodal-integration models fusing imaging, transcriptomic, and clinical data into single predictive models.
Associate Director, Basic Research
2023–2025
Meridian Immune Therapeutics Inc. · Seoul
Built in-house single-cell and spatial transcriptomics analysis code from scratch; led NHP (cynomolgus, marmoset) EAE / MS multi-omic studies; oversaw regulatory documentation for an anti-CD25 humanized-antibody program.
Researcher, Xenotransplantation Research Center
2019–2021
Hangang National University · Seoul
Rhesus macaque tissue processing, longitudinal immune monitoring, CNS (brain and spinal cord) tissue handling.
Research Student, MOSAIC
2020–2023
Multi-Organ Single-cell Atlas of Immune Cells, HNU · Genomic Medicine Institute
Founding proposal contributor; executed within the funded program (500+ donors, 6 organs): milestone tracking, multi-site QC, multi-PI coordination.

Education

Ph.D., Biomedical Sciences
2014–2023
Hangang National University · Seoul
Dendritic Cell Heterogeneity Across Chronic Inflammatory Contexts. Advisor: Min-Ho Suh, M.D., Ph.D.
M.S., Biomedical Sciences
2012–2014
Hangang National University · Seoul
LPS-induced monocyte activation by recombinant human soluble CD180.
B.S., Genetic Engineering
2008–2012
Suwon Institute of Life Sciences · Suwon

Selected Publications · Barnes B highlighted

1Reyes M*, Barnes B*, 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 integration; classifier AUC 0.812; 702 samples, 251,055 CD4⁺ T cells.
2Barnes B*, 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." Journal of Neuroimmunology IF 2.9 · 2025. 11,587 cells.
3Barnes B*, Delgado J*, Moreau S, et al. "Deciphering Dysfunctional Regulatory T Cells in Vitiligo." Allergy IF 12.6 · 2025.
4Alvarez J*, Barnes B*, 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*, Barnes B*, et al. "Intra-tumoral heterogeneity and immune escape of melanoma from chronic UV photodamage by spatial gene expression." JEADV IF 9.2 · 2022.
6Barnes B*, 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). Co-first = equal contribution (shared first authorship).

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-level isoform code (Python); Milo, GLIPH, InferCNV; GeoMx DSP; Olink proteomics.
Machine learning / deep learning / AIPython (scikit-learn, XGBoost / LightGBM / CatBoost, PyTorch); AUC-validated classifiers; VAE / GAN / GNN; multimodal DL (imaging + transcriptomic + clinical); AlphaFold2/3, ProteinMPNN, DiffDock, MolFormer; Linux, R, Git.
Experimental10x 5′/3′ scRNA + scTCR libraries; high-dimensional flow cytometry (24 markers); brain / CNS immune profiling; IHC / IF; two-photon microscopy; NHP CNS tissue (rhesus, cynomolgus, marmoset); EAE / MS and islet-transplant models.

Awards & Patents

Anti-CD25 Humanized Antibody (Patent)2024
PI3K Inhibitor Composition (Patent)2019
Grand Prize, AI Builders Hackathon2024
Grand Prize, Metro Innovation Workathon2023
Best Poster, ATC Chicago2017
NRF · BK21 Plus · HNU Dean's2014–2020

References

Min-Ho Suh, M.D., Ph.D.
HNU College of Medicine; CEO / CSO, Meridian Immune. Ph.D. advisor.
mhsuh@hangang.ac.kr
Ji-Won Baek, M.D., Ph.D.
HNU, Microbiology & Immunology / IBRI. Computational co-corresponding.
jwbaek@hangang.ac.kr
Dae-Ho Yoon, Ph.D.
Nakdong Wonju, Physiology. Recent research supervisor.
dhyoon@nakdong.ac.kr