Biotechnologist • PhD Scholar • RNA | DNA

Decoding Gene Expression to Solve Real-World Health Problems

I combine wet-lab expertise with computational biology to uncover novel insights into gene regulation and develop translational applications for precision medicine.

About Me

Dr. Sarah Chen

PhD Candidate | Department of Biotechnology | Stanford University

I'm a biotechnologist specializing in RNA-Seq analysis and computational genomics. My research bridges experimental molecular biology with bioinformatics to understand gene regulation in disease contexts. With expertise spanning from bench work to high-performance computing, I develop integrative approaches to analyze complex biological datasets.

Research Focus:

  • Differential gene expression analysis
  • Single-cell transcriptomics
  • Long-read RNA sequencing
  • Pathway and network analysis

Research Areas

RNA-Seq

Differential Expression Analysis

Developing robust statistical methods for identifying differentially expressed genes across conditions.

Single-Cell

Single-Cell Transcriptomics

Characterizing cell-type specific expression patterns in complex tissues using scRNA-seq.

Isoforms

Long-Read RNA Sequencing

Investigating full-length transcript isoforms and their functional implications using nanopore sequencing.

Meta-Analysis

Cross-Study Integration

Developing methods for harmonizing and analyzing RNA-seq data across multiple studies and platforms.

Selected Publications

2023

Comprehensive analysis of alternative splicing in cancer reveals pervasive dysregulation of RNA processing

Nature Genetics • Chen S*, Johnson A, Smith B, et al.

2022

Single-cell resolution of the human brain transcriptome in Alzheimer's disease

Cell • Johnson A, Chen S*, Lee B, et al.

2021

Long-read sequencing reveals novel isoforms and splicing patterns in developing human brain

Nature Communications • Chen S, Williams T, Brown M, et al.

2020

A comparative analysis of RNA-seq alignment algorithms and their impact on differential expression results

Bioinformatics • Chen S, Taylor R

Technical Skills

Computational Biology

Python (NumPy, Pandas, SciPy) 95%
R (Bioconductor, tidyverse) 90%
Nextflow & Snakemake 85%
Linux/Bash 80%

Wet-Lab & Analysis

RNA/DNA Extraction 95%
NGS Library Prep 90%
Single-Cell Techniques 80%
CRISPR/Cas9 75%

Projects & Tools

RNA-Seq QC Dashboard

Interactive web application for quality control and exploratory analysis of RNA sequencing data.

Python Dash Plotly

DE Analysis Pipeline

Reproducible workflow for differential expression analysis from raw reads to pathway enrichment.

Nextflow Docker R

Meta-Analysis Explorer

Tool for integrating and visualizing results from multiple RNA-seq studies across different conditions.

Shiny tidyverse JavaScript

Get In Touch

Contact Information

Feel free to reach out for collaborations, questions about my research, or just to say hello!

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