1Co-first author
*Co-corresponding author
ACS
Y. Choi1, K. Jeong1, S. Shin1, J. W. Lee1, Y. Lee, S. Kim, S. A. Kim, J. Jung, K. P. Kim, V. N. Kim*, J. S. Kim* (2020) “MS1-level proteome quantification platform allowing maximally increased multiplexity for SILAC and in vitro chemical labeling” Anal. Chem., 92(7):4980–4989.
S. Shin, J. H. Hong, Y. Na, M. Lee, W. J. Qian, V. N. Kim, J. S. Kim* (2020) “Development of Multiplexed Immuno-N-Terminomics to Reveal the Landscape of Proteolytic Processing in Early Embryogenesis of Drosophila melanogaster” Anal. Chem., 92(7):4926-4934.
ACS Nano
S.-R. Ryoo, J. Lee, J. Yeo, H.-K. Na, Y.-K. Kim, H. Jang, J. H. Lee, S. W. Han, Y. Lee, V. N. Kim, and D.-H. Min (2013) “Quantitative and Multiplexed MicroRNA Sensing in Living Cells Based on Peptide Nucleic Acid and Nano Graphene Oxide (PANGO)” ACS Nano, 7(7):5882–5891.
I. Jang1, H. Chang1, Y. Jun, S. Park, J. O. Yang, B. Lee, W. Kim, V. N. Kim, and S. Lee (2015) “miRseqViewer: Multi-panel visualization of sequence, structure and expression for analysis of microRNA sequencing data” Bioinformatics, 31(4): 596-598.
Blood
J. Choi, Y.-K. Kim, K. Park, J. Nah, S. S. Yoon, D. W. Kim, V. N. Kim, R. H. Seong (2016) “MicroRNA-139-5p regulates proliferation of hematopoietic progenitors and is repressed during BCR-ABL-mediated leukemogenesis” Blood, 128(17):2117-2129.
Cancer Research and Treatment
B. Choi1, J. Yu1, T.-S. Han, Y.-K. Kim, K. Hur, B.-C. Kang, W. H. Kim, D.-Y. Kim, H.-J. Lee, V. N. Kim, H.-K. Yang (2016) “Gastric Carcinogenesis in the miR-222/221 Transgenic Mouse Model” Cancer Research and Treatment, 49(1):150-160.
Cell
J. Han1, Y. Lee1,K. H. Yeom1, J. W. Nam, I. Heo, J. K. Rhee, S. Y. Sohn, Y. Cho, B. T. Zhang, and V. N. Kim (2006) “Molecular basis for the recognition of primary microRNAs by the Drosha-DGCR8 complex” Cell, 125(5):887-901.
V. N. Kim (2008) “Sorting out small RNAs” Cell, 133:25-26.
J. Han, J. S. Pederson, S. C. Kwon, C. D. Belair, Y.-K. Kim, K. H. Yeom, W. Y. Yang, D. Haussler, R. Blelloch, and V. N. Kim (2009) “Posttranscriptional crossregulation between Drosha and DGCR8” Cell, 136:75-84.
I. Heo1, C. Joo1, Y.-K. Kim1, M. Ha, M.-J. Yoon, J. Cho, K.-H. Yeom, J. Han and V. N. Kim (2009) “TUT4 in Concert with Lin28 Suppresses MicroRNA Biogenesis through Pre-MicroRNA Uridylation” Cell, 138:696-708.
I. Heo and V. N. Kim (2009) “Regulating the Regulators: Posttranslational Modifications of RNA Silencing Factors” Cell, 139:28-31.
S. Hyun1, J. H. Lee1, H. Jin1, J. Nam, B. Namkoong, Gina Lee, J. Chung and V. N. Kim (2009) “Conserved microRNA miR-8/miR-200 and its target USH/FOG2 control growth by regulating PI3K” Cell, 139:1096-1108.
Y.-K. Kim, I. Heo and V. N. Kim (2010) “Modifications of Small RNAs and Their Associated Proteins” Cell, 143:703-709.
I. Heo1, M. Ha1, J. Lim, M.-J. Yoon, J.-E. Park, S. C. Kwon, H. Chang and V. N. Kim (2012) “Mono-uridylation of pre-microRNA as a key step in the biogenesis of group II let-7 microRNAs” Cell, 151: 521-532.
J. Cho1, H. Chang1, S. C. Kwon, B. Kim, Y. Kim, J. Choe, M. Ha, Y. K. Kim and V. N. Kim (2012) “LIN28A is a suppressor of ER-associated translation in embryonic stem cells” Cell, 151: 765-777. 보조 자료
M. Lee, B. Kim and V. N. Kim (2014) “Emerging roles of RNA modifications: m6A and U-tail” Cell, 158:980-987.
J. Lim1, M. Ha1, H. Chang1, S. C. Kwon, D. K. Simanshu, D. J. Patel, and V. N. Kim (2014) “Uridylation by TUT4 and TUT7 marks mRNA for degradation” Cell, 159(6):1365-1376.
T. A. Nguyen, M. H. Jo, Y.-G. Choi, J. Park, S. C. Kwon, S. Hohng, V. N. Kim*, J.-S. Woo* (2015) “Functional Anatomy of the Human Microprocessor” Cell, 161(6):1374-1387.
S. C. Kwon1, T. A. Nguyen1, Y.-G. Choi1, M. H. Jo, S. Hohng, V. N. Kim*, J.-S. Woo* (2016) “Structure of Human DROSHA” Cell, 164(1-2):81-90.
D. Kim, J.-Y. Lee, J.-S. Yang, J. W. Kim, V. N. Kim*, H. Chang* (2020) “The architecture of SARS-CoV-2 transcriptome” Cell, 181(4):914-921.e10.
Cell Host & Microbe
S. Kim1, D. Seo1, D. Kim, Y. Hong, H. Chang, D. Baek, V. N. Kim, S. Lee, K. Ahn (2015) “Temporal Landscape of MicroRNA-Mediated Host-Virus Crosstalk during Productive Human Cytomegalovirus Infection” Cell Host & Microbe, 17(6):838-851.
Cell Reports
Y. Kim1, J. Yeo1, J. H. Lee1, J. Cho, D. Seo, J. Kim, V. N. Kim (2014) “Deletion of human tarbp2 reveals cellular microRNA targets and cell cycle function of TRBP” Cell Reports, 9:1061–1074.
A. Son1, J.-E. Park1, V. N. Kim (2018) “PARN and TOE1 Constitute a 3′ End Maturation Module for Nuclear Non-coding RNAs” Cell Reports, 23(3):888-898.
Developmental Biology
M. R. Suh, Y. Lee, J. Y. Kim, S. K. Kim, S. H. Moon, J. Y. Lee, K. Y. Cha, H. M. Chung, H. S. Yoon, S. Y. Moon, V. N. Kim*, K. S. Kim* (2004) “Human embryonic stem cells express a unique set of microRNAs” Developmental Biology, 270(2):488-98.
Developmental Cell
J.-S. Woo, and V. N. Kim (2014) “MeCP2 Caught Moonlighting as a Suppressor of MicroRNA Processing” Developmental Cell, 28(5):477-478.
H. Kim1, Y. Lee1, S. -M. Kim, S. Jang, H. Choi, J. -W. Lee, T. -D. Kim, V. N. Kim (2021) “RNA demethylation by FTO stabilizes the FOXJ1 mRNA for proper motile ciliogenesis” Developmental Cell, 56(8):1118-1130.
Y. Lee1, J. Kim1, M. Kim1, Y. Kwon, S. Shin, H. Yi, H. Kim, M. Chang, C. Chang, S. Kang, V. N. Kim, J. Kim, J. Kim, S. J. Elledge, C. Kang (2021) “Coordinate regulation of the senescent state by selective autophagy” Develpmental Cell, 56(10):1512-1525.
EMBO Journal
Y. Lee, K. Jeon, J. T. Lee, S. Kim V. N. Kim (2002) “MicroRNA maturation: stepwise processing and subcellular localization” EMBO Journal, 21(17):4663-70.
Y. Lee, M. Kim, J. Han, K. H. Yeom, S. Lee, S. H. Baek, V. N. Kim (2004) “MicroRNA genes are transcribed by RNA polymerase II” EMBO Journal, 23(20):4051-60.
Y. Lee1, I. Hur1, S. Y. Park1, Y.-K. Kim, M. R. Suh V. N. Kim (2006) “The role of PACT in the RNA silencing pathway” EMBO Journal, 25(3):522-32.
Y.-K. Kim, V. N. Kim (2007) “Processing of intronic microRNAs” EMBO Journal, 26(3):775-83.
B. Kim1, M. Ha1, L. Loeff1, H. Chang, D. K. Simanshu, S. Li, M. Fareh, D. J. Patel, C. Joo*, V. N. Kim* (2015) “TUT7 controls the fate of precursor microRNAs by using three different uridylation mechanisms” EMBO Journal, 35(2):115-236. 보조 자료
EMBO Reports
K.-H. Yeom, I. Heo, J. Lee, S. Hohng, V. N. Kim*, C. Joo* (2011) “Single-molecule approach to immunoprecipitated protein complexes: insights into miRNA uridylation” EMBO Reports, 12:690-969.
Experimental Neurobiology
J. Won, S. Lee, M. Park, T. Y. Kim, M. G. Park, B. Y. Choi, D. Kim, H. Chang, V. N. Kim, C. Justin Lee (2020) “Development of a Laboratory-safe and Low-cost Detection Protocol for SARS-CoV-2 of the Coronavirus Disease 2019 (COVID-19)” Exp Neurobiol., published online.
Gastric Cancer
J. Min, T. S. Han, Y. Sohn, T. Shimizu, B. Choi, S. W. Bae, K. Hur, S. H. Kong, Y. S. Suh, H. J. Lee, J. S. Kim, J. K. Min, W. H. Kim, V. N. Kim, E. Choi, J. R. Goldenring & H. K. Yang (2020) “microRNA-30a arbitrates intestinal-type early gastric carcinogenesis by directly targeting ITGA2.” Gastric Cancer., 23:600-613.
Genes & Development
J. Han1, Y. Lee1, K. H. Yeom, Y.-K. Kim, H. Jin , V. N. Kim (2004) “The Drosha-DGCR8 complex in primary microRNA processing” Genes & Development, 18(24):3016-27.
V. N. Kim (2006) “Small RNAs just got bigger: Piwi-interacting RNAs (piRNAs) in mammalian testes” Genes & Development, 20(15):1993-7.
H. Jin, V. N. Kim*, S. Hyun* (2012) “Conserved microRNA miR-8 controls body size in response to steroid signaling in Drosophila” Genes & Development, 26:1427-1432.
Y. Kim, J. H. Lee, J.-E. Park, J. Cho, H. Yi, V. N. Kim (2014) “PKR is activated by cellular dsRNAs during mitosis and acts as a mitotic regulator” Genes & Development, 28: 1310-1322.
K. T. You, J. Park, V. N. Kim (2015) “Role of the small subunit processome in the maintenance of pluripotent stem cells” Genes & Development, 29:2004-2009.
J. Lim1, M. Lee1, A. Son, H. Chang, V. N. Kim (2016) “mTAIL-seq reveals dynamic poly(A) tail regulation in oocyte-to-embryo development” Genes & Development, 30:1671-1682.
S. Son1, B. Kim1, J. Yang, V. N. Kim* (2023) “Role of the proline-rich disordered domain of DROSHA in intronic microRNA processing” Genes & Development, 37:1-15.
Glia
K. Lee, K. Jeon, J. M. Kim, V. N. Kim, D. H. Choi, S. U. Kim and S. Kim (2005) “Downregulation of GFAP, TSP-1, and p53 in human glioblastoma cell line, U373MG, by IE1 protein from human cytomegalovirus” Glia, 51(1):1-12.
Gut
T.-S. Han, K. Hur, G. Xu, B. Choi, Y. Okugawa, Y. Toiyama, H. Oshima, M. Oshima, H.-J. Lee, V. N. Kim, A. N. Chang, A. Goel, and H.-K. Yang (2015) “MicroRNA-29c mediates initiation of gastric carcinogenesis by directly targeting ITGB1” Gut, 64:203–214.
J Proteome Res.
J. Jung, K. Jeong, Y. Choi, S. A. Kim, H. Kim, J. W. Lee, V. N. Kim, K. P. Kim, J. S. Kim (2019) “Deuterium-Free, Three-Plexed Peptide Diethylation for Highly Accurate Quantitative Proteomics” J Proteome Res., 18(3):1078-1087.
Journal of Neurochemistry
S. J. Yim1, Y. S. Lee1, D. J. Chang, J. H. Han, H. Kim, H. Park, H. Jun, V. N. Kim, B. K. Kaang (2006) “Regulation of ApC/EBP mRNA by the Aplysia AU-rich element-binding protein, ApELAV, and its effects on 5-hydroxytryptamine-induced long-term facilitation” Journal of Neurochemistry, 98(2):420-9.
Journal of Clinical Investigation
J. K. Kim, J. Cho, S. H. Kim, H. C. Kang, D. S. Kim, V. N. Kim, J. H. Lee (2019) “Brain somatic mutations in MTOR reveal translational dysregulations underlying intractable focal epilepsy” J Clin Invest., 129(10):4207-4223.
Journal of Microbiology
A. Hong1, D. Kim1, V. N. Kim, H. Chang* (2022) “Analyzing viral epitranscriptomes using nanopore direct RNA sequencing” Journal of Microbiology, 60, pages867–876.
Methods
B. Kim, V. N. Kim (2018) “fCLIP-seq for transcriptomic footprinting of dsRNA-binding proteins: Lessons from DROSHA” Methods, S1046-2023(18)30064-1.
Molecular Cell
I. Heo1, C. Joo1, J. Cho, M. Ha, J. Han, V. N. Kim (2008) “Lin28 mediates the terminal uridylation of let-7 precursor microRNA” Molecular Cell, 32:276-284.
H. H. Lee, Y. S. Kim, K. H. Kim, I. Heo, S. K. Kim, O. Kim, H. K. Kim, J. Y. Yoon, H. S. Kim, D. J. Kim, H. J. Yoon, S. J. Kim, B. G. Lee, H. K. Song, V. N. Kim, C. M. Park, S. W. Suh (2007) “Structural and functional insights into Dom34, a key component of No-Go mRNA decay” Molecular Cell, 27(6):938-50.
Y. Kim, V. N. Kim (2012) “MicroRNA Factory: RISC Assembly from Precursor MicroRNAs” Molecular Cell, 46:384-386.
Y.-K. Kim, J. Yeo, B. Kim, M. Ha, V. N. Kim (2012) “Short Structured RNAs with Low GC Content Are Selectively Lost during Extraction from a Small Number of Cells” Molecular Cell, 46:893-895.
Y. Tian1, D. K. Simanshu1, J.-B. Ma, J.-E. Park, I. Heo, V. N. Kim, D. J. Patel (2014) “A Phosphate-Binding Pocket within the Platform-PAZ-Connector Helix Cassette of Human Dicer” Molecular Cell, 53:606-616.
H. Chang1, J. Lim1, M. Ha, V. N. Kim (2014) “TAIL-seq: Genome-wide Determination of Poly(A) Tail Length and 3′ End Modifications” Molecular Cell, 53(6):1044-1052.
M. Lee, Y. Choi, K. Kim, H. Jin, J. Lim, T. A. Nguyen, J. Yang, M. Jeong, A. J. Giraldez, H. Yang, D. J. Patel, V. N. Kim (2014) “Adenylation of maternally inherited microRNAs by Wispy” Molecular Cell, 56(5):696-707.
J.-E. Park1, H. Yi1, Y. Kim1, H. Chang, V. N. Kim (2016) “Regulation of Poly(A) Tail and Translation during the Somatic Cell Cycle” Molecular Cell, 62(3):462-471.
B. Kim1, K. Jeong1, V. N. Kim (2017) “Genome-wide Mapping of DROSHA Cleavage Sites on Primary MicroRNAs and Noncanonical Substrates” Molecular Cell, 66(2):258-269.
H. Chang1, J. Yeo1, J.-g. Kim, H. Kim, J. Lim, M. Lee, H. H. Kim, J. Ohk, H.-Y. Jeon, H. Lee, H. Jung, K.-W. Kim and V. N. Kim (2018) “Terminal Uridylyltransferases Execute Programmed Clearance of Maternal Transcriptome in Vertebrate Embryos” Molecular Cell, 70(1):72-82.e7.
H. Yi1, J. Park1, M. Ha, J. Lim, H. Chang, V. N. Kim (2018) “PABP Cooperates with the CCR4-NOT Complex to Promote mRNA Deadenylation and Block Precocious Decay” Molecular Cell, 70(6):1081-1088.e5.
Y. Kim1, J. Park1, S. Kim1, M. Kim, M. G. Kang, C. Kwak, M. Kang, B. Kim, H. W. Rhee, V. N. Kim (2018) “PKR senses nuclear and mitochondrial signals by interacting with endogenous double-stranded RNAs” Molecular Cell, 71(6):1051-1063.e6.
S. C. Kwon, S. C. Baek, Y. G. Choi, J. Yang, Y. Lee, J.-S. Woo*, V. N. Kim* (2019) “Molecular basis for the single-nucleotide precision of primary microRNA processing” Molecular Cell, 73(3):505–518.
H. Kim1, J. Kim1, S. Yu, Y.-Y. Lee, J. Park, R. J. Choi, S.-J. Yoon, S.-G. Kang, V. N. Kim (2020) “A mechanism for microRNA arm switching regulated by uridylation” Molecular Cell, 78(6):1224-1236.e5.
R. Shang1, S. C. Baek1, K. Kim, B. Kim, V. N. Kim, E. C. Lai (2020) “Genomic Clustering Facilitates Nuclear Processing of Suboptimal Pri-miRNA Loci” Molecular Cell, 78(2):303–316.
S. Lee1, Y. Lee1, Y. Choi, A. Son, Y. Park, K.-M. Lee, J. Kim, J.-S. Kim, V. N. Kim (2021) “The SARS-CoV-2 RNA interactome” Molecular Cell, 81(13):2838-2850.
K. Kim1, S. Baek1, Y. Lee, C. Bastiaanssen, J. Kim, H. Kim, V. N. Kim (2021) “A quantitative map of human primary microRNA processing sites” Molecular Cell, 81(16):3422-3439.e11.
Molecular Therapy
J. T. Lee, S. S. Yu, V. N. Kim, S. Kim (2007) “Control of Splicing Efficiency by the Mouse Histone H2a Element in a Murine Leukemia Virus-based Retroviral Vector” Molecular Therapy, 15(1):167-72.
Molecular and Cellular Biology
H. Jin1, M. R. Suh1, J. Han, K.-H. Yeom, Y. Lee, I. Heo, M. Ha, S. Hyun, V. N. Kim (2009) “Human UPF1 Participates in Small RNA-Induced mRNA Downregulation” Molecular and Cellular Biology, 20(21):5789-99.
Molecules and Cells
V. N. Kim (2005) “Small RNAs: classification, biogenesis, and function” Molecules and Cells, 19(1):1-15.
Nature
Y. Lee, C. Ahn, J. Han, H. Choi, J. Kim, J. Yim, J. Lee, P. Provost, O. Radmark, S. Kim, V. N. Kim (2003) “The nuclear RNase III Drosha initiates microRNA processing” Nature, 425(6956):415-9.
J.-E. Park1, I. Heo1, Y. Tian, D. K. Simanshu, H. Chang, D. Jee, D. J. Patel, V. N. Kim (2011) “Dicer recognizes the 5′ end of RNA for efficient and accurate processing” Nature, 475:201-205. 보조 자료
Y. Lee1, H. Lee1, H. Kim1, V. N. Kim*, S. H. Roh* (2023) “Structure of the human DICER–pre-miRNA complex in a dicing state” Nature, 615:331-338.
Y. Lee1, H. Kim1, V. N. Kim* (2023) “Sequence determinant of small RNA production by DICER” Nature, 615:323-330.
Nature Biotechnology
V. N. Kim (2018) “RNA-targeting CRISPR comes of age” Nature Biotechnology, 36:44–45.
Nature Communications
K. Boo1, J. Bhin1, Y. Jeon, J. Kim, H. J. Shin, J. E. Park, K. Kim, C. R. Kim, H. Jang, I. H. Kim, V. N. Kim, D. Hwang, H. Lee, S. H. Baek (2015) “Pontin functions as an essential coactivator for Oct4-dependent lincRNA expression in mouse embryonic stem cells” Nature Communications, 6:6810.
S. Shin1, Y. Jung1, H. Uhm, M. Song, S. Son, J. Goo, C. Jeong, J.-J. Song, V. N. Kim, S. Hohng (2020) “Quantification of purified endogenous miRNAs with high sensitivity and specificity” Nature Communications, 6:6810.
C. Kim1, S. Sung1, J. -S. Kim1, H. Lee, Y. Jung, S. Shin, E. Kim, J. J. Seo, J. Kim, D. Kim Hiroyuki Niida, V. N. Kim, D. Park*, J. Lee* (2021) “Telomeres reforged with non-telomeric sequences in mouse embryonic stem cells” Nature Communications, 12:1097.
S. Hwang1, H. Jung, S. Mun, S. Lee, K. Park, S. Baek, H. Moon, H. Kim, B. Kim, Y. Choi, Y. Go, W. Tang, J. Choi, J. Choi, H. Cha, H. Park, P. Liang, V. N. Kim, K. Han*, K. Ahn* (2021) “L1 retrotransposons exploit RNA m6A modification as an evolutionary driving force” Nature Communications, 12:880.
S. Kim1, S. Kim1, H. R. Chang1, D. Kim1, J. Park, N. Son, J. Park, M. Yoon, G. Chae, Y. -K. Kim, V. N. Kim, Y. K. Kim, J. -W. Nam, C. Shin*, D. Baek* (2021) “The regulatory impact of RNA-binding proteins on microRNA targeting” Nature Communications, 12:5057.
J. W. Bae, S. Kim, V. N. Kim*, J.-S. Kim* (2021) “Photoactivatable ribonucleosides mark base-specific RNA-binding sites” Nature Communications, 12:6026.
Nature Genetics
V. N. Kim (2008) “Cell cycle micromanagement in embryonic stem cells” Nature Genetics, 40(12):1391-2.
Nature Immunology
S. Kim, S. Lee, J. Shin, Y. Kim, I. Evnouchidou, D. Kim, Y.-K. Kim, Y.-E. Kim, J.-H. Ahn, S. R. Riddell, E. Stratikos, V. N. Kim and K. Ahn (2011) “Human cytomegalovirus microRNA miR-US4-1 inhibits CD8+ T cell responses by targeting the aminopeptidase ERAP1″ Nature Immunology, 12:984-991.
Nature Reviews Molecular Cell Biology
V. N. Kim (2005) “MicroRNA biogenesis: coordinated cropping and dicing” Nature Reviews Molecular Cell Biology, 6(5):376-85.
V. N. Kim*, J. Han, M. C. Siomi* (2009) “Biogenesis of small RNAs in animals” Nature Reviews Molecular Cell Biology, 10:126-139.
M. Ha, V. N. Kim (2014) “Regulation of microRNA biogenesis” Nature Reviews Molecular Cell Biology, 15, 509–524.
S. Yu, V. N. Kim (2020) “A tale of noncanonical tails: gene regulation by post-transcriptional RNA tailing” Nature Reviews Molecular Cell Biology, 21:542-556.
Nature Structural and Molecular Biology
S. Y. Sohn1, W. J. Bae1, J. J. Kim, K. H. Yeom, V. N. Kim , Y. Cho (2007) “Crystal structure of human DGCR8 core” Nature Structural and Molecular Biology, 14(9):847-53.
S. Y. Park1, J. H. Lee1, M. Ha, J. W. Nam, V. N. Kim (2009) “miR-29 miRNAs activate p53 by targeting p85a and CDC42” Nature Structural and Molecular Biology, 16(1):23-9.
S. C. Kwon, H. Yi, K. Eichelbaum, S. Föhr, B. Fischer, K. T. You, A. Castello, J. Krijgsveld, M. W. Hentze, V. N. Kim (2013) “The RNA-binding protein repertoire of embryonic stem cells” Nature Structural and Molecular Biology, 20(9):1122-1130.
Y.-K. Kim1, G. Wee1, J. Park, J. Kim, D. Baek, J.-S. Kim*, V. N. Kim* (2013) “TALEN-based knockout library for human microRNAs” Nature Structural and Molecular Biology, 20(12):1458-1464.
J. Yeo, V. N. Kim (2018) “U-tail as a guardian against invading RNAs” Nature structural & molecular biology, 25, 903–905.
J. W. Bae, S. C. Kwon, Y. Na, V. N. Kim*, J.-S. Kim* (2020) “Chemical RNA digestion enables robust RNA-binding site mapping at single amino acid-resolution” Nature Structural & Molecular Biology, 27:678-682.
D. Kim1, Y. Lee1, S.-J. Jung1 J. Yeo1, J. J.
Seo, Y.-Y. Lee, J. Lim, H. Chang, J. Song, J.
Yang, J. S. Kim, G. Jung, K. Ahn, V. N. Kim (2020) “Viral hijacking of the TENT4-ZCCHC14 complex protects viral RNAs via mixed tailing” Nature Structural & Molecular Biology, 27:581–588.
J. Park1, M. Kim1, H. Yi1, K. Baeg1, Y. Choi, Y. Lee, J. Lim, V. N. Kim* (2023) “Short poly(A) tails are protected from deadenylation by the LARP1-PABP complex” Nature Structural & Molecular Biology, 1-9.
Nucleic Acids Research
J. W. Nam, K. R. Shin, J. Han, Y. Lee, , V. N. Kim, B. T. Zhang (2005) “Human microRNA prediction through a probabilistic co-learning model of sequence and structure” Nucleic Acids Research, 33(11):3570-81.
K. H. Yeom, Y. Lee, J. Han, M. R. Suh, V. N. Kim (2006) “Characterization of DGCR8/Pasha, the essential cofactor for Drosha in primary miRNA processing” Nucleic Acids Research, 34(16):4622-9.
Y.-K. Kim, J. Yu, T. S. Han, S. Y. Park, B. Namkoong, D. H. Kim, K. Hur, M. W. Yoo, H. J. Lee, H. K. Yang*, V. N. Kim* (2009) “Functional links between clustered microRNAs: suppression of cell-cycle inhibitors by microRNA clusters in gastric cancer” Nucleic Acids Research, 37:1672-1681.
J. Kim, M. Choi, J. R. Kim, H. Jin, V. N. Kim, K. H. Cho (2012) “The co-regulation mechanism of transcription factors in the human gene regulatory network” Nucleic Acids Research, 40(18):8849-8861.
S. Cho, I. Jang, Y. Jun, S. Yoon, M. Ko, Y. Kwon, I. Choi, H. Chang, D. Ryu, B. Lee, V. N. Kim, W. Kim, S. Lee (2012) “miRGator v3.0: a microRNA portal for deep sequencing, expression profiling and mRNA targeting” Nucleic Acids Research, 41 (D1): D252-D257.
T. A. Nguyen1, J. Park1, T. L. Dang, Y. G. Choi, V. N. Kim (2018) “Microprocessor depends on hemin to recognize the apical loop of primary microRNA” Nucleic Acids Res., 46(11):5726-5736.
H. Kim1, J. Kim1, K. Kim, H. Chang, K. You, V. N. Kim (2019) “Bias-minimized quantification of microRNA reveals widespread alternative processing and 3′ end modification” Nucleic Acids Research, 47(5): 2630-2640.
S. C. Kwon1, H. Jang1, S. Shen1, S. C. Baek, K. Kim, J. Yang, J. Kim, J.-S. Kim, S. Wang, Y. Shi, F. Li*, V. N. Kim* (2020) “ERH facilitates microRNA maturation through the interaction with the N-terminus of DGCR8” Nucleic Acids Research, 48(19):11097-11112.
Y. Na, H. Kim, Y. Choi, S. Shin, J. H. Jung, S. C. Kwon, V. N. Kim*, J. S. Kim* (2021) “FAX-RIC enables robust profiling of dynamic RNP complex formation in multicellular organisms in vivo” Nucleic Acids Research, 49(5):e28.
Proceedings of the National Academy of Sciences of the U. S. A.
M. Kampmann, M. A. Horlbeck, Y. Chena, J. C. Tsai, M. C. Bassik, L. A. Gilbert, J. E. Villalta, S. C. Kwon, H. Chang, V. N. Kim, J. S. Weissman (2015) “Next-generation libraries for robust RNA interference-based genome-wide screens” Proceedings of the National Academy of Sciences of the U. S. A., 112(26):E3384-E3391.
Y.-K. Kim*, B. Kim, V. N. Kim* (2016) “Re-evaluation of the roles of DROSHA, Exportin 5, and DICER in microRNA biogenesis” Proceedings of the National Academy of Sciences of the U. S. A., 113(13):E1881-E1889.
Y. Hong, H. Jeong, K. Park, S. Lee, J. Y. Shim, H. Kim, Y. Song, S. Park, H. Y. Park, V. N. Kim, K. Ahn (2021) “STING facilitates nuclear import of herpesvirus genome during infection” Proceedings of the National Academy of Sciences of the U. S. A., 118(33):e2108631118.
RNA
K. Kim1, T. D. Nguyen1, S. Li, T. A. Nguyen (2018) “SRSF3 recruits DROSHA to the basal junction of primary microRNAs” RNA, 24(7):892-898.
Science
J. Cho1, N.-K. Yu1, J.-H. Choi, S.-E. Sim, S. J. Kang, C. Kwak, S.-W. Lee, J. Kim, D. I. Choi, V. N. Kim*, B.-K. Kaang* (2015) “Multiple repressive mechanisms in the hippocampus during memory formation” Science, 350(6256):82–87.
J. Lim1, D. Kim1, Y. Lee1, M. Ha, M. Lee, J. Yeo, H. Chang, J. Song, K. Ahn, V. N. Kim (2018) “Mixed tailing by TENT4A and TENT4B shields mRNA from rapid deadenylation” Science, eaam5794.
Science Translational Medicine
D. Kang1, J. Shin1, Y. Cho, H. S. Kim, Y. R. Gu, H. Kim, K. T. You, M. J. Chang, C. B. Chang, S. B. Kang, J.-S. Kim, V. N. Kim, J. H. Kim (2019) “Stress-activated miR-204 governs senescent phenotypes of chondrocytes to promote osteoarthritis development” Science Translational Medicine, 11(486): eaar6659.
Scientific Reports
S. Lee1, H. Kim1, A. Hong1, J. Song1, S. Lee, M. Kim, S. Hwang, D. Jeong, J. Kim, A. Son, Y. Lee, V. N. Kim, J.-S. Kim, H. Chang*, K. Ahn* (2022) “Functional and molecular dissection of HCMV long non-coding RNAs” Scientific Reports, 12, Article number: 19303.
STAR Protocols
K. Kim*, V. N. Kim* (2022) “High-throughput in vitro processing of human primary microRNA by the recombinant Microprocessor” STAR Protocols, 3(1): 101042.
Trends in Biochemical Sciences
C. Joo, M. Fareh, V. N. Kim (2013) “Bringing single-molecule spectroscopy to macromolecular protein complexes” Trends in Biochemical Sciences, 38(1):30-37.
Trends in Cell Biology
Trends in Genetics
V. N. Kim and J. W. Nam (2006) “Genomics of microRNA” Trends in Genetics, 22(3):165-73.
Books
Y. Lee, V. N. Kim (2007) “In vitro and in vivo assays for the activity of drosha complex” Methods in Enzymology 427:87-106 doi:10.1016/S0076-6879(07) 27005-3
Y. Lee, J. Han, K. H. Yeom, H. Jin, V. N. Kim (2006) “Drosha in primary microRNA processing” Cold Spring Harbor Symposia on Quantative Biology (2006) 71:51-7 doi:10.1101/sqb.2006.71.041
Y. Lee, V. N. Kim (2005) “Preparation and analysis of Drosha” Methods in Molecular Biology 309:17-28
Patents
The inhibition method of microRNA
The recombinant primary microRNA molecule for RNA interference
