Ying Zhang, Ph.D.

yzhang's picture
MSI Unit: 
Research Informatics Support Systems
Title: 
RISS Informatics Analyst
Office: 
514 Walter Library
MSI Email: 
yzhang@msi.umn.edu
UMN Email: 
zhan2142@umn.edu
Phone: 
(612) 624-3737
Education: 

As a brief summary of my education and previous experience, I graduated from the University of Science and Technology of China (2002) and pursued a PhD degree at Penn State University (2009). I started my research in Bioinformatics since the very beginning of my PhD period and have been working on several great projects, focusing on computational modeling of the GATA-1-related Erythroid regulation.  After that, I joined Dr. Eric Harvill’s lab to apply comparative genomics on the understanding of the pathogenesis of B. pertussis, the causative agent of whooping cough.

Expertise: 

My expertise could be pinpointed into the following categories:

1. Good understanding on complex model systems:  Hematopoieses system (human and mouse cell line) and human pathogen (bacteria – Bordetellae)

2. Proficient in Comparative Genomics analysis: Genome manipulation, including assembly, annotation and alignment; Sequence level analysis, including binding site motif discovery, quantifying conservation, repeats identification; Training models using real-world data

3. Proficient in Next-Generation Sequencing technologies: short reads mapping, assembling and peak calling

4. Programming Skills: Python, R (statistical) and C, excellence in Galaxy platform

Besides the above dry lab expertise, I am also familiar with some of the traditional wet lab technologies, such as PCR, transient transfection and stable transfection assays, linkage mapping, positional cloning and sequencing.