I am a 5th-year Ph.D. candidate in Computer Science at The Pennsylvania State University. I am honored to be advised by Dr. Mingfu Shao. I received my Master degree in Computer Technology from University of Chinese Academy of Sciences in 2019 and I got my Bachelor degree in Aircraft Airworthiness and Applied Mathematics (minor) from Beihang University in 2016. My CV is here.

Research

My research interests lie in algorithm design and machine learning, and particularly their applications in healthcare and diagnostics. Also, I am interested in designing machine learning models for resource allocation in high throughput computing since I realized that many bioinformatics workflows consists of hundreds or thousands of tasks that vary from short serial tasks to very large parallel tasks.

Currently I am working on designing algorithms and developing softwares for the following research topics:

• transcriptome assembly
• single-cell RNA-seq data analysis
• assembly with spatial transcriptomic data

Software

Open source software Scallop2 is an improved reference-based transcriptome assembler that enables accurate assembly of transcriptomes at both single-cell resolution (with Smart-seq3 data) and bulk level (with Illumina paired-end data). Software is available at github and developed using C++. Scallop2 has been published at Nature Computational Science.

Contact

W205, Westgate Building, The Pennsylvania State University, University Park, PA 16802
Email: qqz5133@psu.edu