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

Jan 13, 2022 eMAP is covered in a news article from Picower (link)
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 🎓