Postdoctoral Fellow @Lee Lab in Boston Children's Hospital
I'm a postdoctoral fellow at Lee Lab, advised by Prof. Eunjung Alice Lee in Boston Children''s Hospital. I study RNAs derived from retrotransposons and their biological roles in diverse biological mechanisms.
Contact: jayoung.ku@childrens.harvard.edu
Education & Training
Research fellow, 2023 - present, Divison of Genetics and Genomics, Boston Children's Hospital, USA
Advisor: Prof. Eunjung Alice Lee
Ph.D., 2019 - 2023, Chemical and Biomolecular Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, Republic of Korea
Advisor: Prof. Yoosik Kim
MS, 2017 - 2019, Chemical and Biomolecular Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, Republic of Korea
Advisor: Prof. Yoosik Kim
BS, 2012 - 2016, Chemical and Biomolecular Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, Republic of Korea
Key Skills & Research Interest
RNA Biology, RNA sequencing analysis, Image analysis.
Gene regulatory function of RNAs derived from transposable elements: Alu dsRNAs in 3' UTR.
Transcriptome-wide computational approach to study RNA biology.
Image-based quantitative analysis of alternatively spliced transcripts.
Publications
Keonyong Lee*, Jayoung Ku*, Doyeong Ku, and Yoosik Kim#
Experimental & Molecular Medicine, (2024)
https://doi.org/10.1038/s12276-024-01177-3
Jayoung Ku*, Keonyong Lee*, Doyeong Ku, Sujin Kim, Jongbin Lee, Hyunwoo Bang, Namwook Kim, Hyunsu Do, Hyeonjung Lee, Chunghun Lim, Jinju Han, Young-suk Lee#, and Yoosik Kim#
Molecular Cell, 84, 6 (2024)
Sujin Park*, Jayoung Ku*, Sung-Min Lee, Huiseon Hwang, Namseok Lee, Hanul Kim, Ki-Jun Yoon, Yoosik Kim#, and Siyoung Q. Choi#
Science of the Total Environment, 824, 153818 (2022)
Jayoung Ku*, Ryul Kim*, Dongchan Kim, Daeyoon Kim, Seulki Song, Keonyong Lee, Namseok Lee, MinA Kim, Sung-Soo Yoon, Nam Hoon Kwon, Sunghoon Kim, Yoosik Kim#, and Youngil Koh#
Communications Biology, 3, 630 (2020)
Jayoung Ku*, Sura Kim*, Jaemin Park, Tae-Shin Kim, Raisa Kharbash, Eui-Cheol Shin, Kookheon Char, Yoosik Kim#, and Sheng Li#
Biomacromolecules, 21, 2440-2454 (2020)
Contributed Publications
Sujin Kim*, Stephanie Tan*, Jayoung Ku, Tria Asri Widowati, Doyeong Ku, Keonyong Lee, Kwontae You, and Yoosik Kim#
Molecular Cell, 84, 1-14 (2024)
Mark Borris D. Aldonza*, Junghwa Cha*, Insung Yong*, Jayoung Ku, Pavel Sinitcyn, Dabin Lee, Ryeong-Eun Cho, Roben D. Delos Reyes, Dongwook Kim, Soyeon Kim, Minjeong Kang, Yongsuk Ku, Geonho Park, Hye-Jin Sung, Han Suk Ryu, Sukki Cho, Tae Min Kim, Pilnam Kim#, Je-Yoel Cho#, and Yoosik Kim#
eLife, 12, e75191 (2023)
Keonyong Lee*, Kate Molloy O'Neill*, Jayoung Ku, Stanislav Yefimovic Shvartsman, and Yoosik Kim#
Korean Journal of Chemical Engineering, 40, 436-444 (2023)
Sujin Kim*, Keonyong Lee*, Yong Seok Choi, Jayoung Ku, Hyeonkyeong Kim, Raisa Kharbash, Jimin Yoon, Yong Seuk Lee, Jin-Hong Kim, Yun Jong Lee#, and Yoosik Kim#
Cell Reports, 40, 111178 (2022)
Hamin Na, Byoung-Hoon Kang, Jayoung Ku, Yoosik Kim, and Ki-Hun Jeong#
BioChip Journal, 15, 305-311 (2021)
Mark Borris D. Aldonza, Roben D. Delos Reyes, Young Seo Kim, Jayoung Ku, Ana Melisa Barsallo, Ji-Young Hong, Sang Kook Lee, Han Suk Ryu, YongKeun Park, Je-Yoel Cho#, and Yoosik Kim#
Scientific Reports, 11, 8016 (2021)
Mark Borris D. Aldonza, Jayoung Ku, Ji-Young Hong, Donghwa Kim, Seung Jung Yu, Min-Seok Lee, Monica Celine Prayogo, Stephanie Tan, Dayeon Kim, Jinju Han, Sang Kook Lee, Sung Gap Im, Han Suk Ryu, and Yoosik Kim#
Science Advances, 6, eaav7416 (2020)
Sujin Kim, Yongsuk Ku, Jayoung Ku, and Yoosik Kim#
BioEssays, 41, e1900023 (2019)
Sura Kim, Jayoung Ku, Jaemin Park, Raisa Kharbash, and Sheng Li#
Journal of Visualized Experiments (JoVE), 141, e58843 (2018)
Hyunjoo Son, Jayoung Ku, Yoosik Kim, Sheng Li#, and Kookheon Char#
Biomacromolecules, 19, 951-961 (2018)
Honors and Awards
2021 Graduate students in biomedical research fellowship, ASAN foundation. (KRW 40,000,000 for 2 years)
2019 Best Poster Award at 2019 KAIST CBE Graduate Student Symposium, KAIST CBE.
2018 Kim Young-Han Global Leader Scholarship, KAIST. (KRW 3,000,000 for 1 year)
Grant
2024 Harnessing interactions between transposable element RNAs and RNA-binding proteins in splicing modulation, Post-doctoral Training Grants, National Research Foundation (NRF), South Korea. KRW 60,000,000 for 1 year
2020 Plasmonic Bio-diagnosis chip for Rapid Detection of Virus double-stranded RNA, Venture Research Program for Master's and PhD Students in the College of Engineering, KAIST. KRW 20,000,000 for 1 year
2018 Investigation of the Intercellular Mechanism of Double-stranded RNA, Venture Research Program for Master's and PhD Students in the College of Engineering, KAIST. KRW 9,000,000 for 1 year
2023 Selective Gene Regulation of Inverted Alu Repeats through Alternative Polyadenylation, KAIST RNA Club. (2023)
2022 Post-transcriptional gene regulation via crosstalk between alternative polyadenylation and endogenous double-stranded RNAs, EMBL Symposium The complex life of RNA. (2022)
2022 Alternative Polyadenylation Orchestrates Dynamic Gene Regulation of Endogenous dsRNAs, KSMCB RNA Summer Symposium. (2022)
2022 Alternative Polyadenylation Orchestrates Dynamic Gene Regulation of Endogenous dsRNAs, 27th Annual Meeting of the RNA Society. (2022)
2021 Alternative Polyadenylation Orchestrates Dynamic Gene Regulation of Endogenous dsRNAs, KSMCB. (2021)
2020 Single-cell Analysis of Alternative Splicing Variant of AIMP2 and Its Clinical Implications in Hematologic Cancer, KSCMB. (2020)
2019 Antibody immobilized polymer brush platform for viral dsRNA detection, KSMCB RNA Summer Symposium. (2019)
2019 Antibody immobilized polymer brush platform for viral dsRNA detection, 84th Cold Spring Harbor Symposium (RNA control & regulation CSH). (2019)
2019 Clinically applicable RNA in situ hybridization method to detect and quantify exon 2 skipping variant of AIMP2, The 30th KSMCB Winter Conference. (2019)
2018 Clinically applicable RNA in situ hybridization method to detect and quantify exon 2 skipping variant of AIMP2, RNA Biology meetings on CSH-Asia. (2018)
2018 A Novel Platform for the Detection of Alternative Splicing of AIMP2 with RNA-FISH, IUBMB (2018)
2020 Spring Teaching Assistant, Chemical and Biomolecular Engineering Laboratory (CBE301).
2019 Fall Teaching Assistant, Molecular Engineering Laboratory (CBE201).
2019 Fall Teaching Assistant, Special Topics in Chemical and Biomolecular Engineering (CBE481).
2018 Winter/Spring Teaching Assistant/Mentorship, URP program, Use of Machine Learning to Enhance RNA Sequence to 3-D Structure Matching Prediction Accuracy.
2018 Spring Teaching Assistant, Molecular Reaction Engineering (CBE311).
2017 Fall Teaching Assistant, Chemical and Biomolecular Engineering Capstone Design Project (CBE442).
Undergraduates Mentorship Byung Tae Lee (2017 Summer), Dae Young Kim (2017 Winter/2018 Spring), Keonyong Lee (2017 Winter, 2018 Spring), Seihee Yang (2019 Summer), Seung Hwan Son (2020 Summer, Fall), Kyeongjun Lee (2021 Fall, Winter, 2022 Spring, Summer)
Wet-lab technique:
Mammalian cell experiments (cell culture, transfection, electroporation, etc.)
Bacteria cell experiments (transformation, cloning, Gibson assembly, site-directed mutagenesis)
Lentiviral transduction (CRISPR-Cas9, shRNA, etc.)
*Western blotting
*Immunoprecipitation
RNA biology
- Quantitative RT-PCR
- formaldehyde-crosslinking immunoprecipitation (fCLIP)
- *RNA-seq library preparation using Illumina TruSeq kits
- *in vitro transcription
- *RNA-FISH in cultured cells (DIG-labeled UTP, smFISH, etc.)
Bioinformatics:
General skills
- Unix/Linux environment
- Programming languages: Python, R
RNA sequencing
- *mRNA-seq, rRNA-depleted seq, fCLIP-seq analysis (Softwares: STAR, HISAT2, Samtools, featureCounts, DESeq2, etc.)
- Bisulfite RNA-seq (Softwares: Bismark, etc.)
Image analysis
- *Automated quantitative analysis using MATLAB