* Co-first author, # Co-correspondance
ETCHING: SV Caller
Jang-il Sohn*, Min-Hak Choi*, Dohun Yi*, A Vipin Menon, Yeon Jeong Kim, Junehawk Lee, Jung Woo Park, Sungkyu Kyung, Seung-Ho Shin, Byunggook Na, Je-Gun Joung, Sungroh Yoon, Young Seok Ju, Min Sun Yeom, Youngil Koh, Sung-Soo Yoon, Daehyun Baek, Tae-Min Kim, and Jin-Wu Nam, Ultra-fast Prediction of Somatic Structural Variations by Reduced Read Mapping via Pan-Genome k-mer Sets, Nature Biomed. Eng. in press.
Sukjun Kim, Soyoung Kim, Hee Ryung Chang, Doyeon Kim, Junehee Park, Narae Son, Joori Park, Minhyuk Yoon, Gwangung Chae, Young-Kook Kim, V. Narry Kim, Yoon Ki Kim, Jin-Wu Nam, Chanseok Shin#, and Daehyun Baek#. The regulatory impact of RNA-binding proteins on microRNA targeting, Nature Communs. 12:5057, 2021.
Mouse Myeloid-derived Suppressor Cells
Eunkyeong Jang, Somi Cho, Sungjin Pyo, Jin-Wu Nam, Jeehee Youn. An inflammatory loop between spleen-derived myeloid cells and CD4+ T cells leads to accumulation of long-lived plasma cells that exacerbates lupus autoimmunity, Frontiers In Immunology, 12:631472, 2021 Feb-11.
Single cell analysis of fly lymph gland
Bumsik Cho*, Sang-Ho Yoon*, Daewon Lee, Ferdinand Koranteng, Sudhir Gopal Tattikota, Nuri Cha, Mingyu Shin, Hobin Do, Yanhui Hu, Sue Young Oh, Seok Joon Moon, Norbert Perrimon, Jin-Wu Nam#, Jiwon Shim#. Single-cell transcriptome maps of myeloid blood cell lineages in Drosophila, Nature Comm., 11:4483, 2020.
Mass-cytometry & scRNAs-eq - Nanoparticle Toxicity
My Kieu Ha, Sook Jin Kwon, Jang‐Sik Choi, Nguyen Thanh Nguyen, Jaewoo Song, Yangsoon Lee, Young‐Eun Kim, Incheol Shin, Jin‐Wu Nam, Tae Hyun Yoon. Mass Cytometry and Single‐Cell RNA‐seq Profiling of the Heterogeneity in Human Peripheral Blood Mononuclear Cells Interacting with Silver Nanoparticles, Small, 16(21):, 2020.
Single cell analysis of fly bloods
Sudhir Gopal Tattikpta, Yanhui Hu, Yifang Liu, Bumsik Cho, Vibtor Barrera, Michael Steinbaugh, Sang-Ho Yoon, Aram Comjean, Fangge Li, Franz Dervis, Ruei-Jiun Hung, Jin-Wu Nam, Shannan Ho Sui, Jiwon Shim, Norbert Perrimon. A Single-cell survey of Drosophila blood, elife, 9:e54818, 2020.
Genome and Transcriptome Analyses of Jejuma
Krishnamoorthy Srikanth, Nam-Young Kim, Woncheoul Park, Jae-Min Kim, Kwon-Do Kim, Kyung-Tai Lee, Ju-Hwan Son, Han-Ha Chai, Jung-Woo Choi, Gul-Won Jang, Heebal Kim, Youn-Chul Ryu, Jin-Wu Nam, Jong-Eun Park, Jun-Mo Kim & Dajeong Lim. Comprehensive genome and transcriptome analyses reveal genetic relationship, selection signature, and transcriptome landscape of small-sized Korean native Jeju, Scientific Reports, 9(1):16672, 2019.
Assessment of inflammation in Pulmonary Artey Hypertension
Jun-Bean Park, Jae-Hoon Choi, Jin-Wu Nam, Hyung-Kwan Kim, Yun-Sang Lee, Jae Min Jeong, Yong-Jin Kim, Jin Chul Paeng and Seung-Pyo Lee. Assesment of inflammation in pulmonary artery hypertension by 68Ga-Mannosylated Human serum albumin, American journal of Respiratory and Critical Care Medicine, 201(1):95-106, 2020.
Functional Elements of Human XIST
Hyeon Lee*, Rama Gopalappa, Hongjae Sunwoo*, Seowon Choi, Suresh Ramakrishna, Jeannie Lee, Hyongbum (Henry) Kim#, Jin-Wu Nam#. En bloc and segmental deletions of human XIST reveal X chromosome inactivation- involving RNA elements, Nucleic Acids Res, 47(8):3875-3887, 2019.
Transcriptome Analysis of Non-Foamy cells in Atherosclerotic Murine Models
Kyeongdae Kim , Dahee Shim , Jun Seong Lee , Konstantin Zaitsev , Jesse W Williams , Ki-Wook Kim , Man-Young Jang , Hyung Seok Jang , Tae Jin Yun , Seung Hyun Lee , Won Kee Yoon , Annik Prat , Nabil G Seidah , Jungsoon Choi , Seung-Pyo Lee , Sang-Ho Yoon , Jin Wu Nam , Je Kyung Seong, Goo Taeg Oh , Gwendalyn Randolph , Maxim N Artyomov , Cheolho Cheong , and Jae-Hoon Choi . Transcriptome Analysis Reveals Non-Foamy Rather than Foamy Plaque Macrophages Are Pro-Inflammatory in Atherosclerotic Murine Models, Circulation Res, 123(10) :1127-1142, 2018.
HSF2 and lncRNAs in black tissues
Hyosun Hong*, Han-Ha Chai*, Kyoungwoo Nam, Dajeong Lim, Kyung-Tai Lee, Yoon Jung Do, Chang-Yeon Cho and Jin-Wu Nam. HSF2 Co-regulates Protein-coding and Long Non-coding RNA Genes Specific to Black Tissues of the Black Chicken, Yeonsan Ogye , International Journal of Molecular Sciences, 19(8):E2359, 2018.
Ogye draft genome and transcriptomes
Jang-il Sohn*, Kyoungwoo Nam*, Hyosun Hong*, Jun-Mo Kim*, Dajeong Lim, Kyung-Tai Lee, Yoon Jung Do, Chang Yeon Cho, Namshin Kim, Han-Ha Chai# and Jin-Wu Nam#. Whole genome and transcriptome maps of the entirely black native Korean chicken breed Yeonsan Ogye , GigaSciences, 7(7):giy086, 2018.
Targeted Exomse Sequencing in TN-Breast Cancer
Hae Min Jeong, Ryong Nam Kim, Mi Jeong Kwon, Ensel Oh, Jinil Han, Se Kyung Lee, Jong-Sun Choi, Sara Park, Seok Jin Nam, Gyung Yup Gong, Jin Wu Nam, Doo Ho Choi, Hannah Lee, Byung-Ho Nam, Yoon-La Choi and Young Kee Shin. Targeted exome sequencing of Korean triple-negative breast cancer reveals homozygous deletions associated with poor prognosis of adjuvant chemotherapy-treated patients, Oncotarget, 8(37):61538-61550, 2017.
Endogenous Cpf1 efficiency predictor
Hui Kwon Kim, Myungjae Song, Jinu Lee, Adrussery. Vipin Menon, Soobin Jung, Young-Mook Kang, Euijeon Woo, Jin-Wu Nam, and Hyongbum (Henry) Kim. In vivo high-throughput profiling of CRISPR-Cpf1 activity based on target sequence composition, Nature Methods, 14(2):153-159, 2017.
Parkinson’s disease therapy by NSCs expanded with LIN28A
Yong-Hee Rhee, Tae-Ho Kim, A-Young Jo, Mi-Yoon Chang, Chang-Hwan Park,Sang-Mi Kim, Jae-Jin Song, Sang-Min Oh, Sang-Hoon Yi, Hyeon Ho Kim, Bo-Hyun You, Jin-Wu Nam, and Sang-Hun Lee. LIN28A enhances the therapeutic potential of cultured neural stem cells in a Parkinson’s disease model, Brain, 139(10):2722-2739, 2016.
micoRNA-362-3p/329 as tumor suppressor
Hoin Kang, Chongtae Kim, Heejin Lee, Jun Gi Rho, Jwa-Won Seo, Jin-Wu Nam, Woo Keun Song, Suk Woo Nam, Wook Kim and Eun Kyung Lee. Downregulation of microRNA-362-3p and microRNA-329 promotes tumor progression in human breast cancer, Cell Death & Diff, 23(3):484-495, 2016.
B.-T Zhang and J.-W. Nam. Supervised learning approach for microRNA studies, Machine Learning in Bioinformatics, Chapter 16, John Wiley & Sons, 2008.
E.-J. Park, J.-W. Nam, I.-H. Lee, and B.-T. Zhang Solving the monkey and banana problem using DNA computing. Preliminary Proceedings of the Tenth International Meeting on DNA Computing (DNA10), p.452, 2004.