• 6366 Citations
  • 21 h-Index
20042020

Research output per year

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Research Output

2020

A single-cell survey of drosophila blood

Tattikota, S. G., Cho, B., Liu, Y., Hu, Y., Barrera, V., Steinbaugh, M. J., Yoon, S. H., Comjean, A., Li, F., Dervis, F., Hung, R. J., Nam, J. W., Sui, S. H., Shim, J. & Perrimon, N., 2020 May, In : eLife. 9, p. 1-35 35 p., e54818.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

Assessment of inflammation in pulmonary artery hypertension by 68Ga-mannosylated human serum albumin

Park, J. B., Suh, M., Park, J. Y., Park, J. K., Kim, Y. I., Kim, H., Cho, Y. S., Kang, H., Kim, K., Choi, J. H., Nam, J. W., Kim, H. K., Lee, Y. S., Jeong, J. M., Kim, Y. J., Paeng, J. C. & Lee, S. P., 2020 Jan 1, In : American Journal of Respiratory and Critical Care Medicine. 201, 1, p. 95-106 12 p.

Research output: Contribution to journalArticle

7 Scopus citations

CGD: Comprehensive guide designer for CRISPR-Cas systems

Menon, A. V., Sohn, J. I. & Nam, J. W., 2020, In : Computational and Structural Biotechnology Journal. 18, p. 814-820 7 p.

Research output: Contribution to journalArticle

Open Access

Mass Cytometry and Single-Cell RNA-seq Profiling of the Heterogeneity in Human Peripheral Blood Mononuclear Cells Interacting with Silver Nanoparticles

Ha, M. K., Kwon, S. J., Choi, J. S., Nguyen, N. T., Song, J., Lee, Y., Kim, Y. E., Shin, I., Nam, J. W. & Yoon, T. H., 2020 May 1, In : Small. 16, 21, 1907674.

Research output: Contribution to journalArticle

2019

Comprehensive genome and transcriptome analyses reveal genetic relationship, selection signature, and transcriptome landscape of small-sized Korean native Jeju horse

Srikanth, K., Kim, N. Y., Park, W. C., Kim, J. M., Kim, K. D., Lee, K. T., Son, J. H., Chai, H. H., Choi, J. W., Jang, G. W., Kim, H., Ryu, Y. C., Nam, J. W., Park, J. E., Kim, J. M. & Lim, D., 2019 Dec 1, In : Scientific reports. 9, 1, 16672.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

En bloc and segmental deletions of human XIST reveal X chromosome inactivation-involving RNA elements

Lee, H. J., Gopalappa, R., Sunwoo, H., Choi, S. W., Ramakrishna, S., Lee, J. T., Kim, H. H. & Nam, J. W., 2019 May 1, In : Nucleic Acids Research. 47, 8, p. 3875-3887 13 p.

Research output: Contribution to journalArticle

Open Access
3 Scopus citations

HERES, a lncRNA that regulates canonical and noncanonical Wnt signaling pathways via interaction with EZH2

You, B. H., Yoon, J. H., Kang, H., Lee, E. K., Lee, S. K. & Nam, J. W., 2019 Dec 3, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 49, p. 24620-24629 10 p.

Research output: Contribution to journalArticle

Open Access
6 Scopus citations

HuR stabilizes a polyadenylated form of replication-dependent histone mRNAs under stress conditions

Ryu, I., Park, Y., Seo, J. W., Park, O. H., Ha, H., Nam, J. W. & Kim, Y. K., 2019 Jan 1, In : FASEB Journal. 33, 2, p. 2680-2693 14 p.

Research output: Contribution to journalArticle

1 Scopus citations

The small peptide world in long noncoding RNAs

Choi, S. W., Kim, H. W. & Nam, J. W., 2019 Sep 27, In : Briefings in Bioinformatics. 20, 5, p. 1853-1864 12 p.

Research output: Contribution to journalReview article

Open Access
17 Scopus citations

UPF1/SMG7-dependent microRNA-mediated gene regulation

Park, J., Seo, J. W., Ahn, N., Park, S., Hwang, J. & Nam, J. W., 2019 Dec 1, In : Nature Communications. 10, 1, 4181.

Research output: Contribution to journalArticle

Open Access
5 Scopus citations
2018

Non-coding transcriptome maps across twenty tissues of the Korean Black Chicken, Yeonsan Ogye

Hong, H., Chai, H. H., Nam, K., Lim, D., Lee, K. T., Do, Y. J., Cho, C. Y. & Nam, J. W., 2018 Aug 10, In : International Journal of Molecular Sciences. 19, 8, d2359.

Research output: Contribution to journalArticle

2 Scopus citations
2 Scopus citations

The long noncoding RNA LUCAT1 promotes tumorigenesis by controlling ubiquitination and stability of DNA methyltransferase 1 in esophageal squamous cell carcinoma

Yoon, J. H., You, B. H., Park, C. H., Kim, Y. J., Nam, J. W. & Lee, S. K., 2018 Mar 28, In : Cancer Letters. 417, p. 47-57 11 p.

Research output: Contribution to journalArticle

63 Scopus citations

The present and future of de novo whole-genome assembly

Sohn, J. I. & Nam, J. W., 2018 Jan 1, In : Briefings in Bioinformatics. 19, 1, p. 23-40 18 p., bbw096.

Research output: Contribution to journalArticle

33 Scopus citations

Transcriptome analysis reveals nonfoamy rather than foamy plaque macrophages are proinflammatory in atherosclerotic murine models

Kim, K., Shim, D., Lee, J. S., Zaitsev, K., Williams, J. W., Kim, K. W., Jang, M. Y., Jang, H. S., Yun, T. J., Lee, S. H., Yoon, W. K., Prat, A., Seidah, N. G., Choi, J., Lee, S. P., Yoon, S. H., Nam, J. W., Seong, J. K., Oh, G. T., Randolph, G. J. & 3 others, Artyomov, M. N., Cheong, C. & Choi, J. H., 2018, In : Circulation Research. 123, 10, p. 1127-1142 16 p.

Research output: Contribution to journalArticle

47 Scopus citations

Whole genome and transcriptome maps of the entirely black native Korean chicken breed Yeonsan Ogye

Sohn, J. I., Nam, K., Hong, H., Kim, J. M., Lim, D., Lee, K. T., Do, Y. J., Cho, C. Y., Kim, N., Chai, H. H. & Nam, J. W., 2018, In : GigaScience. 7, 7, p. 1-14 14 p.

Research output: Contribution to journalArticle

5 Scopus citations
2017

DROSHA targets its own transcript to modulate alternative splicing

Lee, D., Nam, J. W. & Shin, C., 2017 Jul, In : RNA. 23, 7, p. 1035-1047 13 p.

Research output: Contribution to journalArticle

7 Scopus citations

High-confidence coding and noncoding transcriptome maps

You, B. H., Yoon, S. H. & Nam, J. W., 2017 Jun, In : Genome Research. 27, 6, p. 1050-1062 13 p.

Research output: Contribution to journalArticle

23 Scopus citations

In vivo high-throughput profiling of CRISPR-Cpf1 activity

Kim, H. K., Song, M., Lee, J., Menon, A. V., Jung, S., Kang, Y. M., Choi, J. W., Woo, E., Koh, H. C., Nam, J. W. & Kim, H., 2017 Feb 1, In : Nature Methods. 14, 2, p. 153-159 7 p.

Research output: Contribution to journalArticle

114 Scopus citations
3 Scopus citations

Targeted exome sequencing of Korean triple-negative breast cancer reveals homozygous deletions associated with poor prognosis of adjuvant chemotherapy-treated patients

Jeong, H. M., Kim, R. N., Kwon, M. J., Oh, E., Han, J., Lee, S. K., Choi, J. S., Park, S., Nam, S. J., Gong, G. Y., Nam, J. W., Choi, D. H., Lee, H., Nam, B. H., Choi, Y. L. & Shin, Y. K., 2017 Sep 1, In : Oncotarget. 8, 37, p. 61538-61550 13 p.

Research output: Contribution to journalArticle

6 Scopus citations
2016

Downregulation of microRNA-362-3p and microRNA-329 promotes tumor progression in human breast cancer

Kang, H., Kim, C., Lee, H., Rho, J. G., Seo, J. W., Nam, J. W., Song, W. K., Nam, S. W., Kim, W. & Lee, E. K., 2016 Mar 1, In : Cell Death and Differentiation. 23, 3, p. 484-495 12 p.

Research output: Contribution to journalArticle

45 Scopus citations

Incredible RNA: Dual functions of coding and noncoding

Nam, J. W., Choi, S. W. & You, B. H., 2016 May 1, In : Molecules and Cells. 39, 5, p. 367-374 8 p.

Research output: Contribution to journalReview article

36 Scopus citations

LIN28A enhances the therapeutic potential of cultured neural stem cells in a Parkinson's disease model

Rhee, Y. H., Kim, T. H., Jo, A. Y., Chang, M. Y., Park, C. H., Kim, S. M., Song, J. J., Oh, S. M., Yi, S. H., Kim, H. H., You, B. H., Nam, J. W. & Lee, S. H., 2016 Oct 1, In : Brain. 139, 10, p. 2722-2739 18 p.

Research output: Contribution to journalArticle

7 Scopus citations

Measuring intratumor heterogeneity by network entropy using RNA-seq data

Park, Y., Lim, S., Nam, J. W. & Kim, S., 2016 Nov 24, In : Scientific reports. 6, 37767.

Research output: Contribution to journalArticle

12 Scopus citations

Pseudo-reference-based assembly of vertebrate transcriptomes

Nam, K., Jeong, H. & Nam, J. W., 2016 Feb 24, In : Genes. 7, 3, 10.

Research output: Contribution to journalArticle

The expression and functional roles of microRNAs in stem cell differentiation

Shim, J. & Nam, J. W., 2016, In : BMB reports. 49, 1, p. 3-10 8 p.

Research output: Contribution to journalShort survey

6 Scopus citations
2015

Global estimation of the 3' untranslated region landscape using RNA sequencing

Kim, M. H., You, B. H. & Nam, J. W., 2015 Jul 15, In : Methods. 83, p. 111-117 7 p.

Research output: Contribution to journalArticle

18 Scopus citations

Predicting effective microRNA target sites in mammalian mRNAs

Agarwal, V., Bell, G. W., Nam, J. W. & Bartel, D. P., 2015 Aug 12, In : eLife. 4, AUGUST2015, e05005.

Research output: Contribution to journalArticle

2168 Scopus citations
2014

Global analyses of the effect of different cellular contexts on microRNA targeting

Nam, J. W., Rissland, O. S., Koppstein, D., Abreu-Goodger, C., Jan, C. H., Agarwal, V., Yildirim, M. A., Rodriguez, A. & Bartel, D. P., 2014 Mar 20, In : Molecular Cell. 53, 6, p. 1031-1043 13 p.

Research output: Contribution to journalArticle

140 Scopus citations
2013

Degradome sequencing reveals an endogenous microRNA target in C. elegans

Park, J. H., Ahn, S., Kim, S., Lee, J., Nam, J. W. & Shin, C., 2013 Apr 2, In : FEBS Letters. 587, 7, p. 964-969 6 p.

Research output: Contribution to journalArticle

9 Scopus citations
2012

Long noncoding RNAs in C. elegans

Nam, J. W. & Bartel, D. P., 2012 Dec, In : Genome Research. 22, 12, p. 2529-2540 12 p.

Research output: Contribution to journalArticle

141 Scopus citations
2010

Expanding the microRNA targeting code: functional sites with centered pairing.

Shin, C., Nam, J. W., Farh, K. K. H., Chiang, H. R., Shkumatava, A. & Bartel, D. P., 2010 Jun 25, In : Molecular Cell. 38, 6, p. 789-802 14 p.

Research output: Contribution to journalArticle

Open Access
416 Scopus citations
2009

Conserved MicroRNA miR-8/miR-200 and Its Target USH/FOG2 Control Growth by Regulating PI3K

Hyun, S., Lee, J. H., Jin, H., Nam, J-W., Namkoong, B., Lee, G., Chung, J. & Kim, V. N., 2009 Dec 11, In : Cell. 139, 6, p. 1096-1108 13 p.

Research output: Contribution to journalArticle

206 Scopus citations

miR-29 miRNAs activate p53 by targeting p85α and CDC42

Park, S. Y., Lee, J. H., Ha, M., Nam, J. W. & Kim, V. N., 2009 Jan 1, In : Nature Structural and Molecular Biology. 16, 1, p. 23-29 7 p.

Research output: Contribution to journalArticle

485 Scopus citations
2008

Supervised Learning Methods for MicroRNA Studies

Zhang, B. T. & Nam, J-W., 2008 Apr 21, Machine Learning in Bioinformatics. John Wiley & Sons, Inc., p. 339-365 27 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

2007

Dinucleotide step parameterization of pre-miRNAs using multi-objective evolutionary algorithms

Nam, J. W., Lee, I. H., Hwang, K. B., Park, S. B. & Zhang, B. T., 2007 Jan 1, Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics - 5th European Conference, EvoBIO 2007, Proceedings. Springer Verlag, p. 176-186 11 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 4447 LNCS).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Discovery of microRNA-mRNA modules via population-based probabilistic learning

Joung, J. G., Hwang, K. B., Nam, J. W., Kim, S. J. & Zhang, B. T., 2007 May 1, In : Bioinformatics. 23, 9, p. 1141-1147 7 p.

Research output: Contribution to journalArticle

126 Scopus citations

Genetic polymorphism of XRCC3 Thr241Met and breast cancer risk: Case-control study in Korean women and meta-analysis of 12 studies

Lee, S. A., Lee, K. M., Park, S. K., Choi, J. Y., Kim, B., Nam, J-W., Yoo, K. Y., Noh, D. Y., Ahn, S. H. & Kang, D., 2007 Jun 1, In : Breast Cancer Research and Treatment. 103, 1, p. 71-76 6 p.

Research output: Contribution to journalArticle

34 Scopus citations

Identification and characterization of small RNAs from vernalized Arabidopsis thaliana

Oh, M., Lee, H., Kim, Y. K., Nam, J. W., Rhee, J. K., Zhang, B. T., Kim, V. N. & Lee, I., 2007 Oct 31, In : Journal of Plant Biology. 50, 5, p. 562-572 11 p.

Research output: Contribution to journalArticle

5 Scopus citations
2006

Genomics of microRNA

Kim, V. N. & Nam, J. W., 2006 Mar 1, In : Trends in Genetics. 22, 3, p. 165-173 9 p.

Research output: Contribution to journalReview article

693 Scopus citations

miTarget: MicroRNA target gene prediction using a support vector machine

Kim, S. K., Nam, J. W., Rhee, J. K., Lee, W. J. & Zhang, B. T., 2006 Sep 18, In : BMC Bioinformatics. 7, 411.

Research output: Contribution to journalArticle

165 Scopus citations

Molecular Basis for the Recognition of Primary microRNAs by the Drosha-DGCR8 Complex

Han, J., Lee, Y., Yeom, K. H., Nam, J. W., Heo, I., Rhee, J. K., Sohn, S. Y., Cho, Y., Zhang, B. T. & Kim, V. N., 2006 Jun 2, In : Cell. 125, 5, p. 887-901 15 p.

Research output: Contribution to journalArticle

1044 Scopus citations

ProMiR II: A web server for the probabilistic prediction of clustered, nonclustered, conserved and nonconserved microRNAs

Nam, J. W., Kim, J., Kim, S. K. & Zhang, B. T., 2006 Jul, In : Nucleic Acids Research. 34, WEB. SERV. ISS., p. W455-W458

Research output: Contribution to journalArticle

55 Scopus citations
2005

A kernel method for MicroRNA target prediction using sensible data and position-based features

Kim, S. K., Nam, J. W., Lee, W. J. & Zhang, B. T., 2005 Dec 1, Proceedings of the 2005 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB '05. 1594897. (Proceedings of the 2005 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB '05; vol. 2005).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

6 Scopus citations

Human microRNA prediction through a probabilistic co-learning model of sequence and structure

Nam, J. W., Shin, K. R., Han, J., Lee, Y., Kim, V. N. & Zhang, B. T., 2005 Oct 18, In : Nucleic Acids Research. 33, 11, p. 3570-3581 12 p.

Research output: Contribution to journalArticle

164 Scopus citations

Obesity and genetic polymorphism of ERCC2 and ERCC4 as modifiers of risk of breast cancer

Lee, S. A., Lee, K. M., Park, W. Y., Kim, B., Nam, J., Yoo, K. Y., Noh, D. Y., Ahn, S. H., Hirvonen, A. & Kang, D., 2005 Apr 30, In : Experimental and Molecular Medicine. 37, 2, p. 86-90 5 p.

Research output: Contribution to journalArticle

30 Scopus citations
2004

Computational methods for identification of human microRNA precursors

Nam, J. W., Lee, W. J. & Zhang, B. T., 2004 Jan 1, In : Lecture Notes in Artificial Intelligence (Subseries of Lecture Notes in Computer Science). 3157, p. 732-741 10 p.

Research output: Contribution to journalConference article

4 Scopus citations

Two-step genetic programming for optimization of RNA common-structure

Nam, J. W., Joung, J. G., Ahn, Y. S. & Zhang, B. T., 2004 Jan 1, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Raidl, G. R., Cagnoni, S., Johnson, C. G., Corne, D. W., Drechsler, R., Smith, G. D., Jin, Y., Machado, P., Rothlauf, F., Branke, J., Marchiori, E. & Squillero, G. (eds.). Springer Verlag, p. 73-83 11 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 3005).

Research output: Chapter in Book/Report/Conference proceedingChapter

5 Scopus citations