- 🔭 I’m currently a 5-th year PhD student (candidate) at the Department of Ecology and Evolutionary Biology, University of California Irvine.
- Oxford Nanopore sequencing: I am using our new PromethION P2 Solo to sequence Drosophila and Peromyscus (deermice, very cute!) species. Lately, my read N50 of Drosophila sequences are 20 to 28kb (Usually 10 to 16 kb in recent publications). The read N50 of Peromyscus is 33-44 kb (typical performance).
- Genomics: Basically all operations with illumina short reads, PacBio CLR, PacBio Hifi, ONT R9 and modern ONT R10 Q20 reads. Fine genome assembly, annotation and variant calling are my daily life.
- Population genetics: Detecting natural selection by all means even though I am neutral. Haha.
- Plant biology. Although I am gaining many bioinformatics, I still preserve my heart of a naturalist.
- Other wet lab: PCR, pulsed field gel electrophoresis, HMW DNa extraction ..... and most of the basics. No proteomics so far. I have done mouse works while I was a medical student but this is not my type.
- Coding: I view myself as a biology and bioinformatic "user" instead of a developer, so I am good at finding adequate tools and connect them together. Bash script is used most frequently. Of course, programming in R is essential as well while tidyverse is my favorite. Sometimes, Python helps.
- Petting cute animals, in cluding Shiba inu, corgi, golden retriver, cat, rabbit and more.
- Fish genome We found some digestive enzyme genes (amylase, trypsin, lipase, chitinases) displayed inter-species variation and its correlated with their diet. We are about to submit it to the journal.
- Structural variants This work was presented in 2025 Drosophila Annual meeting. The manuscript is on its way.
- Sequencing bias I am trying to figure out why Drosophila is so hard to sequence with ONT (and other) technologies. This is a developing project.
In addition to my research, welcome to visit my Flickr Album