Yuk Kei Wan

A little about me

I'm Yuk Kei (pronounciation: Yuki) and am working on machine-learning and cloud-computing methods for nanopore sequencing analysis. I'm interested in biotech developments for healthcare and sustainability.

Before my PhD, I worked five years on CRISPR-related projects: gene replacement in drosophila with the Homology-Directed Repair pathway and combinatorial CRISPR screens in ovarian cancer cell lines and gastric cancer organoids. Other than nanopore and CRISPR, I also spent one semester analyzing 2-photon microscopy images during my masters.

Feel free to check out my projects and reach out if you have any questions!

Would love to chat!

Education

2021 - 2025 (expected)

PhD in Compuational Biology

National University of Singapore

2018 - 2019

MS in Bioinformatics

Johns Hopkins University

2014 - 2017

BS in Microbiology and Molecular Genetics

Michigan State University

Selected Projects

arowana

arowana is a transformer-based training framework for RNA basecalling and modification detection. Will come up with a logo soon.

role: primary developer

GitHub Paper

nf-core/nanoseq

nfcore/nanoseq is a cloud-optimized nextflow pipeline for processing and analyzing Nanopore DNA/RNA sequencing data.

role: primary developer

GitHub Paper

m6anet

m6anet is a multiple instance-based model for detecting m6A in natural transcriptome.

role: contributor

GitHub Paper

xpore

xpore is a Gaussian-Mixture-Model-based method for differential RNA modification detection.

role: contributor

GitHub Paper

CombiPIPE

CombiPIPE is a nextflow pipeline for analyzing combinatorial CRISPR with the CombiGEM-CRISPR platform.

role: primary developer

GitHub Paper

Detect clear cell carcinoma from 2-photon hyperstack images

My first computational project! This script runs on FIJI on 2-photon images of kidney samples and output a scrore for clear cell carcinoma, which is 80% of all renal cancer.

role: primary developer

GitHub

Skills

Here are the different research skills I have aquired working in different labs since September 2014:

More About Me

Paintings/Drawings

I paint/draw portraits of my family and friends and sloths for fun on Saturdays. More on instagram @potatot.art

Reading the World

I read novels from different countries, except those that I'm familar with (China, Japan, the U.S., the U.K.). Here is a map of the books I've read so far: