PuBlications

2024

• PM exposure during pregnancy affects childhood asthma via placental epigenetic changes: neuronal differentiation and proliferation and Notch signaling pathways
  Hyo-Bin Kim*, Si Hyeon Lee*, Dae Yeol Yang, Seung-Hwa Lee, Jeong-Hyun Kim, Hwan-Cheol Kim, Kil Yong Choi, So-Yeon Lee, Song-I Yang, Dong In Suh, Youn Ho Shin, Kyung Won Kim, Kangmo Ahn, Suk-Joo Choi, Ja-Young Kwon, Soo Hyun Kim, Jong Kwan Jun, Mi-Young Lee, Hye-Sung Won, Kwoneel Kim†, Soo-Jong Hong†  *These authors contributed equally +These authors jointly supervised this work
  Environmental Pollution. 366, 125471 (2024)

• Proteogenomic analysis reveals non-small cell lung cancer subtypes predicting chromosome instability, and tumor microenvironment
  Kyu Jin Song*, Seunghyuk Choi*, Kwoneel Kim*, Hee Sang Hwang*, Eunhyong Chang, Ji Soo Park, Seok Bo Shim, Seunghwan Choi, Yong Jin Heo, Woo Ju An, Dae Yeol Yang, Kyung-Cho Cho, Wonjun Ji, Chang-Min Choi, Jae Cheol Lee, Hyeong-ryul Kim, Jiyoung Yoo, Hee-Sung Ahn, Gang-Hee Lee, Chanwoong Hwa, Seoyeon Kim, Kyunggon Kim, Min-Sik Kim, Eunok Paek, Seungjin Na+, Se Jin Jang+, Joon-Yong An+ & Kwang Pyo Kim+ *These authors contributed equally +These authors jointly supervised this work 
  Nature Communications. 15, 10164 (2024)

Pan-cancer proteogenomic landscape of whole-genome doubling reveals putative therapeutic targets in various cancer types
Eunhyong Chang, Su-Jung Kim, Hee Sang Hwang, Kyu Jin Song, Kwoneel Kim, Min-Sik Kim, Se Jin Jang, Sungyong You, Kwang Pyo Kim, Joon-Yong An  
Clinical and Translational Medicine. 14, e1796 (2024)

2022

• Antigen coverage presented by MHC class I has a negative correlation with SARS-CoV-2-induced mortality
  Ji Soo Park and Kwoneel Kim
  Vaccines. 10, 1917 (2022)

• Gene essentiality for tumor growth influences neoantigen-directed immunoediting
  Hyoeun Bang, Jae Soon Park, Jeong Yeon Kim, Changhwan Sung, Jinhyeon An, Dae-Yeon Cho, Se-Hoon Lee, Seok Bo Shim, Jung Kyoon Choi, Kwoneel Kim
  Clinical and Translational Medicine. 12, e714 (2022)

2021

• Recurrence-associated gene signature in patients with stage I non-small-cell lung cancer
  Su Han Cho*, Shinkyo Yoon*, Dae Ho Lee, Sang-We Kim, Kwoneel Kim *These authors contributed equally
  Scientific Reports. 11, 19596 (2021)

• Integrative multi-omics approach for mechanism of humidifier disinfectant-associated lung injury
  Jeong-Hyun Kim*, Kwoneel Kim*, Jeonghun Yeom*, Eun Lee, Mi-Jin Kang, Seung-Hwa Lee, Kyunggon Kim, So-Yeon Lee, Sang-Bum Hong, Dong Kyu Oh, Kyuhong Lee, Seong-Jin Choi, Mi-
  Jin Yang, Jiyeon Kim, Soo-Jong Hong *These authors contributed equally
  Clinical and Translational Medicine. 11, e562 (2021)

• Longitudinal change of genetic variations in cetuximab-treated metastatic colorectal cancer  
  Sun Young Kim*, Kwoneel Kim*, Su Han Cho, Sung-Min Chun, Eunyoung Tak, Yong Sang Hong, Jeong Eun Kim, Tae Won Kim *These authors contributed equally
  Cancer Genetics. 258-259, 27-36 (2021)

• DNA methylation and gene expression patterns are widely altered in fetal growth restriction and associated with FGR development
  Seoyeong Lee, Young Nam Kim, DoHwa Im, Su Han Cho, Jiyeon Kim, Jeong-Hyun Kim, Kwoneel Kim
  Animal Cells and Systems. 25, 128-135 (2021)

2020

• Accelerated evolution of the regulatory sequences of brain development in the human genome
  Kang Seon Lee, Hyoeun Bang, Jung Kyoon Choi, Kwoneel Kim
  Molecules and Cells. 43, 331-339 (2020)

• How to interpret and integrate multi-omics data at systems level
  Gun Tae Jung, Kwang-Pyo Kim, Kwoneel Kim
  Animal Cells and Systems. 24, 1-7 (2020)

• Predicting clinical benefit of immunotherapy by antigenic or functional mutations affecting tumour immunogenicity
  Kwoneel Kim, Hong Sook Kim, Jeong Yeon Kim, Hyunchul Jung, Jong-Mu Sun, Jin Seok Ahn, Myung-Ju Ahn, Keunchil Park, Se-Hoon Lee, Jung Kyoon Choi
  Nature Communications. 11, 951 (2020)

2017

• Network perturbation by recurrent regulatory variants in cancer
  Kiwon Jang*, Kwoneel Kim*, Ara Cho, Insuk Lee, Jung Kyoon Choi *These authors contributed equally
  PLoS Computional Biology. 13, e1005449 (2017)

2016

• Chromatin structure-based prediction of recurring noncoding mutations in cancer
  Kwoneel Kim*, Kiwon Jang, Woojin Yang, Eun-Young Choi, Seong-Min Park, Mingyun Bae, Youn-Jae Kim & Jung Kyoon Choi
  Nature Genetics. 48, 1321-1326 (2016)

• Intersection of genetics and epigenetics in monozygotic twin genomes
  Kwoneel Kim, Kibaick Lee, Hyoeun Bang, Jeong Yeon Kim, Jung Kyoon Choi
  Methods. 103, 50-56 (2016)

2015

• Global transcription network incorporating distal regulator binding reveals selective cooperation of cancer drivers and risk genes
  Kwoneel Kim, Woojin Yang, Kang Seon Lee, Hyoeun Bang, Kiwon Jang, Sang Cheol Kim, Jin Ok Yang, Seongjin Park, Kiejung Park and Jung Kyoon Choi
  Nucleic Acids Research. 43, 5716-5729 (2015)

• Genetic architecture of transcription and chromatin regulation
  Kwoneel Kim, Hyoeun Bang, Kibaick Lee, Jung Kyoon Choi
  Genomics & Informatics. 13, 40-44 (2015)

2014

• Genetic factors underlying discordance in chromatin accessibility between monozygotic twins
  Kwoneel Kim, Hyo-Jeong Ban, Jungmin Seo, Kibaick Lee, Maryam Yavartanoo, Sang Cheol Kim, Kiejung Park, Seong Beom Cho and Jung Kyoon Choi
  Genome Biology. 15, R72 (2014)

Collagen Triple Helix Repeat Containing 1 (CTHRC1) acts via ERK-dependent induction of MMP9 to promote invasion of colorectal cancer cells
Hee Cheol Kim, Yong Sung Kim, Hyun-Woo Oh, Kwoneel Kim, Sang-Seok Oh, Jong-Tae Kim, Bo Yeon Kim, Seon-Jin Lee, Yong-Kyung Choe, Dong Hyeok Kim, Seok-Hyung Kim, Seoung Wan Chae, Kwang Dong Kim, and Hee Gu Lee
Oncotarget. 5, 519-529 (2014)

2013

Genome-wide reorganization of histone H2AX toward particular fragile sites on cell activation
Jungmin Seo, Kwoneel Kim, Dong-Yeop Chang, Ho-Bum Kang, Eui-Cheol Shin, Jongbum Kwon and Jung Kyoon Choi
Nucleic Acids Research. 42, 1016-1025 (2013)

Regulation of the boundaries of accessible chromatin
Xiaoran Chai, Sanjanaa Nagarajan, Kwoneel Kim, Kibaick Lee, Jung Kyoon Choi
PLoS Genetics. 9, e1003778 (2013)

Genetic landscape of open chromatin in yeast
Kibaick Lee, Sang Cheol Kim, Inkyung Jung, Kwoneel Kim, Jungmin Seo, Heun-Sik Lee, Gireesh K. Bogu, Dongsup Kim, Sanghyuk Lee, Byungwook Lee, Jung Kyoon Choi
PLoS Genetics. 9, e1003229 (2013)

2011

• Epigenetic regulation of microRNA-10b and targeting of oncogenic MAPRE1 in gastric cancer
  Kwoneel Kim, Han-Chul Lee, Jong-Lyul Park, Mirang Kim, Seon-Young Kim, Seung-Moo Noh, Kyu-Sang Song, Jin Cheon Kim and Yong Sung Kim
  Epigenetics. 6, 740-751 (2011)