scRNA-seq Analysis Pipeline
A reproducible Python/R pipeline for processing and analysing single-cell RNA sequencing data from CNS tissue. Includes quality control, dimensionality reduction, clustering, and differential expression modules.
Hello, I'm
Meghamsh
Teja
PhD Student •
Neuroimmunologist
Exploring glial biology, microglial dynamics, and the molecular mechanisms of neuroinflammation at Trinity College Dublin.
Trinity College Dublin
·
NCBS Bangalore
About Me
The mind behind the microscope
I'm a PhD student in Colm Cunningham's Lab at Trinity College Dublin, where I investigate the mechanisms underlying delirium — a debilitating acute neurological syndrome associated with systemic illness — through the lens of neuroimmunology and glial biology.
Before joining TCD, I was a Junior Research Fellow in Hiyaa Ghosh's Lab at NCBS Bangalore, where I worked on microglial dynamics and fate in injury response using single-cell transcriptomics and advanced imaging techniques.
Beyond the bench, I'm passionate about coding, automation, and bringing AI-driven approaches to biological research.
Neuroinflammation
scRNA-seq
AI in Biology
Automation
Coding
5+
Years Research Experience
2
Research Labs
5+
Programming Languages & Tools
2
Countries
Research
Investigating the brain's immune guardians
Current Position
PhD Researcher — Delirium & Neuroinflammation
Colm Cunningham Lab · Trinity College Dublin
Investigating the neuroimmunological underpinnings of delirium in the context of systemic inflammation and surgery. My work focuses on how peripheral immune signals propagate to the brain, perturb glial homeostasis, and drive acute cognitive dysfunction in vulnerable populations.
Glial cell activation in systemic illness
Molecular mechanisms of acute CNS dysfunction
Neuroimmune communication pathways
Previous Position
Junior Research Fellow — Microglial Dynamics
Hiyaa Ghosh Lab · NCBS Bangalore
Explored microglial fate and phenotypic plasticity following CNS injury using single-cell RNA sequencing and advanced imaging modalities. Contributed to understanding how microglia transition between homeostatic and reactive states and the transcriptional programs governing these transitions.
Single-cell transcriptomics of microglia
Microglial fate mapping post-injury
Flow cytometry & immunofluorescence imaging
Research Interests
Glial Biology
Disease progression, homeostasis maintenance, and reactive state transitions in microglia and astrocytes.
Single-Cell Genomics
scRNA-seq pipelines to decode transcriptional heterogeneity and cell state dynamics in the CNS.
Neuroinflammation
How peripheral immune signals disrupt CNS homeostasis and contribute to neurological disorders.
Computational Biology
Python and R-based pipelines for multimodal data integration and biological insight extraction.
Projects
Code meets curiosity
Lab Workflow Automation
Selenium-based automation scripts for streamlining repetitive lab data-entry and literature-curation workflows. Reduces manual effort and minimises human error in high-throughput data management tasks.
Flow Cytometry Data Visualiser
An R Shiny / Python Dash tool for interactive visualisation and statistical analysis of flow cytometry datasets, enabling rapid exploration of immune cell population dynamics from experimental data.
Interactive
Microglial Dynamics — Live
Microglia are the brain's resident immune cells and key players in delirium. Move your cursor across the canvas to trigger their surveillance response — processes extend toward signals of distress. Click anywhere to release an inflammatory signal and watch nearby cells activate, mimicking the neuroimmune cascade that drives acute cognitive dysfunction.
Skills
Tools & expertise
Programming
Python
R
Bash / Shell
Selenium
Bioinformatics
ImageJ / FIJI
Imaris
FlowJO
GraphPad Prism
LasX
Lab Techniques
- Stereotaxic Surgery
- Single-Cell RNA-Seq (scRNA-seq)
- Flow Cytometry
- Immunofluorescence Staining
- Confocal Microscopy
- Tissue Sectioning & Histology
- Cell Culture
- Western Blotting
Publications
Research outputs
Microglial transcriptional heterogeneity following traumatic CNS injury: a single-cell perspective
NCBS Bangalore Annual Research Symposium
Glial reactivity and cognitive dysfunction in a model of systemic inflammation-driven delirium
Trinity Biomedical Sciences Institute Postgraduate Symposium
More publications and pre-prints coming soon. Follow me on Twitter for updates.
Contact
Let's talk science
I'm always happy to discuss research ideas, collaboration opportunities, or just chat about neuroimmunology or coding. Reach out through any of the channels below.