Research in the Sheffield lab

Nathan Sheffield, PhD
www.databio.org/slides
We develop and apply computational methods
to organize, analyze, and understand large epigenomic data.

Keywords

BIOLOGICAL QUESTIONS

Gene regulation
Epigenetics
Cancer

COMPUTATIONAL ANSWERS

High-performance computing
Machine learning
Data science

Biological motivation


Each cell's genome is the same

...yet the cells are diverse

How can one set of instructions
give rise to a multicellular being?

Biological motivation


In development, cells differentiate into roles...



...by folding DNA differently to use a different subset.

Biological motivation


...but when it breaks down, disease can result

We can measure DNA folding by sequencing





But huge, diverse datasets lead to computational challenges.

Full-stack bioinformatics



Full-stack bioinformatics


Large-scale metadata standardization

Full-stack bioinformatics



Full-stack bioinformatics


Augmented Interval List

Full-stack bioinformatics


Coordinate Covariation Analysis

Full-stack bioinformatics


Analysis of DNA methylation in Ewing sarcoma

Full-stack bioinformatics



Thanks for listening!

nsheff · databio.org · nsheffield@virginia.edu
Slides at http://databio.org/slides/research_overview.html