t-cells

Multimodal profiling of T-cells in nodal B-cell lymphoma

Bacon, W.A., Hamilton, R.S., Yu, Z., Kieckbusch, J., Hawkes, D., Krzak, A., Abell, C., Colucci, F. & Charnock-Jones, D.S. (2018) Single-Cell Analysis Identifies Thymic Maturation Delay in Growth-Restricted Neonatal Mice. Front. Immunol., 9:2523 https://doi.org/10.3389/fimmu.2018.02523

COmbinatorial PEptide POoling for TCR specificity

Code and data for the ML analysis of humoral and cellular responses to SARS-CoV-2

The protocol that I follow to label membrane proteins (CD45, CD62L, TCR) on Jurkat T-cells.

Characterization of pre-existing and induced SARS-CoV-2-specific CD8+ T cells

scRNA-seq analysis of cardiac immune cells in heart failure. 12 figures. Gja1/Cx43 cardio-immune interface.

The Hitchhiker's Guide to scRNA-seq - 2024

An in-silico transcriptomic pipeline employing single-sample Gene Set Enrichment Analysis (ssGSEA) to quantify and characterize MSigDB Hallmark pathway-level host responses to acute and chronic HIV-1 infection

This repository contains text files with information and links corresponding to QR codes featured in my poster. Each QR code directs viewers to detailed content, references, or supplementary materials related to the topics covered in the poster.

Analysis of γδ T cell phenotype and communication in peri-implant fibrosis

Archived version – superseded by updated dual implementation repository.

R analysis of xCELLigence real-time impedance killing assays for T/CAR-cell and NK cytotoxicity

2D active-matter simulation of T cell swarming: ABP plus Vicsek alignment plus chemotaxis, with desensitization and excluded volume

CD4+ T cell Differentiation and Plasticity in COVID-19: a Systems Biology Approach

Used an ensemble learning approach to distinguish between T-helper and T-regulatory cells, known to be hard to differentiate.

Single-cell RNA-seq analysis of Sjögren’s syndrome revealing T-cell state remodeling using dual pipelines (Seurat & Scanpy).

Analysis code (by Dillon Corvino) for Braun et al. — CD155 drives immunotherapy resistance via CD226 degradation in CD8+ T cells. Immunity 2020.

Reproducible scRNA-seq pipeline for T cell profiling (CD4/CD8) using GSE149689, with explicit evaluation of dataset limitations.

Bulk and single-cell RNA-seq analysis of Influenza A infection using Scanpy (Python) and Seurat (R) with independent cross-validation.