Joha Park

Postdoctoral Associate, the Chung lab at MIT.

E-mail:

[firstname][lastname] AT mit.edu

I’m a computational biologist who specializes in sequencing and imaging data analysis. I majored in Biology for my undergraduate at Seoul National University and then joined the Narry Kim lab to study RNA biology. During my Ph.D., I carried out computational analysis on varous types of next-generation sequencing (NGS) datasets. Besides standard NGS technologies such as bulk or single-cell RNA-seq, I have extensive experience in preparing and analyzing custom RNA-seq libraries. For example, I used TAIL-seq to profile global poly(A)-tail length to study mRNA poly(A) tail regulations, and fCLIP-seq to reveal the endogenously-expressed dsRNA binding repertoire of PKR.

After I joined the Chung lab as a postdoc, I’ve been focusing on hydrogel-based tissue engineering (review) and microscopy imaging data analysis. I developed eMAP, a synthetic gel-based tissue-transforming method that maximally preserves the antigenicity by purely physical tissue-hydrogel hybridization. It enables superresolution imaging with a large library of commercial antibodies and conventional confocal microscopy. The typical datasets I analyze are large-scale confocal/light-sheet microscopy images of cleared and expanded tissue-gel hybrids, which usually require dedicated machine learning techniques and efficient parallelization of computation for image processing. My current aim is to generate a single-cell mouse brain atlas and develop an end-to-end 3D volumetric image analysis framework to facilitate the spatial interrogation of biological systems.

My long-term research interest lies in single-cell and spatial genomics in the neuroscience and immunology contexts. I’m particularly interested in how cell-to-cell heterogeneity develops within the healthy and diseased tissue microenvironment. I believe cross-disciplinary approaches utilizing both sequencing and imaging techniques would open an avenue for investigating biological tissues in greater detail at multiple scales.


news

Nov 15, 2021 Received an award for outstanding research from AKN
Nov 12, 2021 The eMAP paper is out in Science Advances !
Jan 16, 2020 Joined Chung Lab as a Postdoctoral Associate
Feb 26, 2019 Received my Ph.D. degree from SNU 🎓