Works by Na, Dokyun

Results: 51

Advanced biotechnology using methyltransferase and its applications in bacteria: a mini review.

Published in:

Biotechnology Letters, 2022, v. 44, n. 1, p. 33, doi. 10.1007/s10529-021-03208-9

By:

Ren, Jun;
Lee, Hyang-Mi;
Shen, JunHao;
Na, Dokyun

Publication type:

Article

A computational clinical decision-supporting system to suggest effective anti-epileptic drugs for pediatric epilepsy patients based on deep learning models using patient's medical history.

Published in:

BMC Medical Informatics & Decision Making, 2024, v. 24, n. 1, p. 1, doi. 10.1186/s12911-024-02552-w

By:

Cho, Daeahn;
Yu, Myeong-Sang;
Shin, Jeongyoon;
Lee, Jingyu;
Kim, Yubin;
Kang, Hoon-Chul;
Kim, Se Hee;
Na, Dokyun

Publication type:

Article

A multi‐layered network model identifies Akt1 as a common modulator of neurodegeneration.

Published in:

Molecular Systems Biology, 2023, v. 19, n. 12, p. 1, doi. 10.15252/msb.202311801

By:

Na, Dokyun;
Lim, Do‐Hwan;
Hong, Jae‐Sang;
Lee, Hyang‐Mi;
Cho, Daeahn;
Yu, Myeong‐Sang;
Shaker, Bilal;
Ren, Jun;
Lee, Bomi;
Song, Jae Gwang;
Oh, Yuna;
Lee, Kyungeun;
Oh, Kwang‐Seok;
Lee, Mi Young;
Choi, Min‐Seok;
Choi, Han Saem;
Kim, Yang‐Hee;
Bui, Jennifer M;
Lee, Kangseok;
Kim, Hyung Wook

Publication type:

Article

Reliable permeability assay system in a microfluidic device mimicking cerebral vasculatures.

Published in:

Biomedical Microdevices, 2012, v. 14, n. 6, p. 1141, doi. 10.1007/s10544-012-9680-5

By:

Yeon, Ju;
Na, Dokyun;
Choi, Kyungsun;
Ryu, Seung-Wook;
Choi, Chulhee;
Park, Je-Kyun

Publication type:

Article

A machine learning-based quantitative model (LogBB_Pred) to predict the blood–brain barrier permeability (logBB value) of drug compounds.

Published in:

Bioinformatics, 2023, v. 39, n. 10, p. 1, doi. 10.1093/bioinformatics/btad577

By:

Shaker, Bilal;
Lee, Jingyu;
Lee, Yunhyeok;
Yu, Myeong-Sang;
Lee, Hyang-Mi;
Lee, Eunee;
Kang, Hoon-Chul;
Oh, Kwang-Seok;
Kim, Hyung Wook;
Na, Dokyun

Publication type:

Article

LightBBB: computational prediction model of blood–brain-barrier penetration based on LightGBM.

Published in:

Bioinformatics, 2021, v. 37, n. 8, p. 1135, doi. 10.1093/bioinformatics/btaa918

By:

Shaker, Bilal;
Yu, Myeong-Sang;
Song, Jin Sook;
Ahn, Sunjoo;
Ryu, Jae Yong;
Oh, Kwang-Seok;
Na, Dokyun

Publication type:

Article

Identification of efficient prokaryotic cell-penetrating peptides with applications in bacterial biotechnology.

Published in:

Communications Biology, 2021, v. 4, n. 1, p. 1, doi. 10.1038/s42003-021-01726-w

By:

Lee, Hyang-Mi;
Ren, Jun;
Tran, Kha Mong;
Jeon, Byeong-Min;
Park, Won-Ung;
Kim, Hyunjoo;
Lee, Kyung Eun;
Oh, Yuna;
Choi, Myungback;
Kim, Dae-Sung;
Na, Dokyun

Publication type:

Article

Advancement of Metabolic Engineering Assisted by Synthetic Biology.

Published in:

Catalysts (2073-4344), 2018, v. 8, n. 12, p. 619, doi. 10.3390/catal8120619

By:

Lee, Hyang-Mi;
Vo, Phuong N. L.;
Na, Dokyun

Publication type:

Article

PLPD: reliable protein localization prediction from imbalanced and overlapped datasets.

Published in:

Nucleic Acids Research, 2006, v. 34, n. 17, p. 4655, doi. 10.1093/nar/gkl638

By:

Lee, KiYoung;
Kim, Dae-Won;
Na, DoKyun;
Lee, Kwang H.;
Lee, Doheon

Publication type:

Article

A machine learning model for classifying G-protein-coupled receptors as agonists or antagonists.

Published in:

BMC Bioinformatics, 2022, v. 23, n. 6, p. 1, doi. 10.1186/s12859-022-04877-7

By:

Oh, Jooseong;
Ceong, Hyi-thaek;
Na, Dokyun;
Park, Chungoo

Publication type:

Article

Comparability of reference-based and reference-free transcriptome analysis approaches at the gene expression level.

Published in:

BMC Bioinformatics, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12859-021-04226-0

By:

Lee, Sung-Gwon;
Na, Dokyun;
Park, Chungoo

Publication type:

Article

Trophoblast glycoprotein is a new candidate gene for Parkinson's disease.

Published in:

NPJ Parkinson's Disease, 2021, v. 7, n. 1, p. 1, doi. 10.1038/s41531-021-00252-0

By:

Park, Sanghyun;
Yoo, Jeong-Eun;
Yeon, Gyu-Bum;
Kim, Jin Hee;
Lee, Jae Souk;
Choi, Sung Kyoung;
Hwang, Young-Gi;
Park, Chan Wook;
Cho, Myung Soo;
Kim, Jongwan;
Na, Dokyun;
Kim, Hyung Wook;
Kim, Dae-Sung;
Kim, Dong-Wook

Publication type:

Article

Construction of a tunable promoter library to optimize gene expression in Methylomonas sp. DH-1, a methanotroph, and its application to cadaverine production.

Published in:

Biotechnology for Biofuels, 2021, v. 14, n. 1, p. 1, doi. 10.1186/s13068-021-02077-8

By:

Lee, Hyang-Mi;
Ren, Jun;
Yu, Myeong-Sang;
Kim, Hyunjoo;
Kim, Woo Young;
Shen, Junhao;
Yoo, Seung Min;
Eyun, Seong-il;
Na, Dokyun

Publication type:

Article

Identification of a cytosine methyltransferase that improves transformation efficiency in Methylomonas sp. DH-1.

Published in:

Biotechnology for Biofuels, 2020, v. 13, n. 1, p. 1, doi. 10.1186/s13068-020-01846-1

By:

Ren, Jun;
Lee, Hyang-Mi;
Thai, Thi Duc;
Na, Dokyun

Publication type:

Article

User guides for biologists to learn computational methods.

Published in:

2020

By:

Na, Dokyun

Publication type:

Editorial

User guide for the discovery of potential drugs via protein structure prediction and ligand docking simulation.

Published in:

Journal of Microbiology, 2020, v. 58, n. 3, p. 235, doi. 10.1007/s12275-020-9563-z

By:

Shaker, Bilal;
Yu, Myung-Sang;
Lee, Jingyu;
Lee, Yongmin;
Jung, Chanjin;
Na, Dokyun

Publication type:

Article

Recent advances in genetic engineering tools based on synthetic biology.

Published in:

Journal of Microbiology, 2020, v. 58, n. 1, p. 1, doi. 10.1007/s12275-020-9334-x

By:

Ren, Jun;
Lee, Jingyu;
Na, Dokyun

Publication type:

Article

Cancer-Associated Fibroblasts Differentiated by Exosomes Isolated from Cancer Cells Promote Cancer Cell Invasion.

Published in:

International Journal of Molecular Sciences, 2020, v. 21, n. 21, p. 8153, doi. 10.3390/ijms21218153

By:

Kim, Kimin;
Sohn, Yeh Joo;
Lee, Ruri;
Yoo, Hye Ju;
Kang, Ji Yoon;
Choi, Nakwon;
Na, Dokyun;
Yeon, Ju Hun

Publication type:

Article

Computational determination of hERG-related cardiotoxicity of drug candidates.

Published in:

BMC Bioinformatics, 2019, v. 20, n. 10, p. 1, doi. 10.1186/s12859-019-2814-5

By:

Lee, Hyang-Mi;
Yu, Myeong-Sang;
Kazmi, Sayada Reemsha;
Oh, Seong Yun;
Rhee, Ki-Hyeong;
Bae, Myung-Ae;
Lee, Byung Ho;
Shin, Dae-Seop;
Oh, Kwang-Seok;
Ceong, Hyithaek;
Lee, Donghyun;
Na, Dokyun

Publication type:

Article

Anti-melanogenic effects of extracellular vesicles derived from plant leaves and stems in mouse melanoma cells and human healthy skin.

Published in:

Journal of Extracellular Vesicles, 2020, v. 9, n. 1, p. 1, doi. 10.1080/20013078.2019.1703480

By:

Lee, Ruri;
Ko, Hae Ju;
Kim, Kimin;
Sohn, Yehjoo;
Min, Seo Yun;
Kim, Jeong Ah;
Na, Dokyun;
Yeon, Ju Hun

Publication type:

Article

Anti‐melanogenic effects of extracellular vesicles derived from plant leaves and stems in mouse melanoma cells and human healthy skin.

Published in:

Journal of Extracellular Vesicles, 2020, v. 9, n. 1, p. 1, doi. 10.1080/20013078.2019.1703480

By:

Lee, Ruri;
Ko, Hae Ju;
Kim, Kimin;
Sohn, Yehjoo;
Min, Seo Yun;
Kim, Jeong Ah;
Na, Dokyun;
Yeon, Ju Hun

Publication type:

Article

DNA steganography: hiding undetectable secret messages within the single nucleotide polymorphisms of a genome and detecting mutation-induced errors.

Published in:

Microbial Cell Factories, 2020, v. 19, n. 1, p. 1, doi. 10.1186/s12934-020-01387-0

By:

Na, Dokyun

Publication type:

Article

In silico prediction of potential chemical reactions mediated by human enzymes.

Published in:

BMC Bioinformatics, 2018, v. 19, p. 29, doi. 10.1186/s12859-018-2194-2

By:

Yu, Myeong-Sang;
Lee, Hyang-Mi;
Park, Aaron;
Park, Chungoo;
Ceong, Hyithaek;
Rhee, Ki-Hyeong;
Na, Dokyun

Publication type:

Article

RBSDesigner: software for designing synthetic ribosome binding sites that yields a desired level of protein expression.

Published in:

Bioinformatics, 2010, v. 26, n. 20, p. 2633, doi. 10.1093/bioinformatics/btq458

By:

Na, Dokyun;
Lee, Doheon

Publication type:

Article

Introduction of an AU-rich Element into the 5' UTR of mRNAs Enhances Protein Expression in Escherichia coli by S1 Protein and Hfq Protein.

Published in:

Biotechnology & Bioprocess Engineering, 2021, v. 26, n. 5, p. 749, doi. 10.1007/s12257-020-0348-3

By:

Lee, Hyang-Mi;
Ren, Jun;
Kim, Woo Young;
Vo, Phuong Ngoc Lam;
Eyun, Seong-il;
Na, Dokyun

Publication type:

Article

Optimization of phage λ promoter strength for synthetic small regulatory RNA-based metabolic engineering.

Published in:

Biotechnology & Bioprocess Engineering, 2016, v. 21, n. 4, p. 483, doi. 10.1007/s12257-016-0245-y

By:

Sung, Minhui;
Yoo, Seung;
Jun, Ren;
Lee, Jae;
Lee, Sang;
Na, Dokyun

Publication type:

Article

Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes.

Published in:

BMC Systems Biology, 2010, v. 4, p. 71, doi. 10.1186/1752-0509-4-71

By:

Dokyun Na;
Sunjae Lee;
Doheon Lee

Publication type:

Article

Categorizer: a tool to categorize genes into user-defined biological groups based on semantic similarity.

Published in:

BMC Genomics, 2014, v. 15, n. 1, p. 942, doi. 10.1186/1471-2164-15-1091

By:

Na, Dokyun;
Hyungbin Son;
Gsponer, Jörg

Publication type:

Article

MicroRNA signatures associated with thioacetamide-induced liver fibrosis in mice.

Published in:

Bioscience, Biotechnology & Biochemistry, 2017, v. 81, n. 7, p. 1348, doi. 10.1080/09168451.2017.1308242

By:

Hong, Jae-Sang;
Lee, Do-Hoon;
Yook, Ye Won;
Jang, Yu Jin;
Kim, Jong-Hoon;
Lee, Young Sik;
Na, Dokyun

Publication type:

Article

THE IN SILICO IDENTIFICATION OF AN HERB THAT CAN AMELIORATE COGNITIVE DECLINE IN MICE MODEL FOR ALZHEIMER' S DISEASE.

Published in:

International Journal of Neuropsychopharmacology, 2025, v. 28, p. i295, doi. 10.1093/ijnp/pyae059.523

By:

Lee, Bomi;
Myeong-San Yu;
Jae Gwang Song;
Dokyun Na;
Hyung Wook Kim

Publication type:

Article

A Novel Vitronectin Peptide Facilitates Differentiation of Oligodendrocytes from Human Pluripotent Stem Cells (Synthetic ECM for Oligodendrocyte Differentiation).

Published in:

Biology (2079-7737), 2021, v. 10, n. 12, p. 1254, doi. 10.3390/biology10121254

By:

Park, Won Ung;
Yeon, Gyu-Bum;
Yu, Myeong-Sang;
Goo, Hui-Gwan;
Hwang, Su-Hee;
Na, Dokyun;
Kim, Dae-Sung

Publication type:

Article

On the Importance of Polar Interactions for Complexes Containing Intrinsically Disordered Proteins.

Published in:

PLoS Computational Biology, 2013, v. 9, n. 8, p. 1, doi. 10.1371/journal.pcbi.1003192

By:

Wong, Eric T. C.;
Na, Dokyun;
Gsponer, Jörg

Publication type:

Article

The conserved microRNA miR‐8‐3p coordinates the expression of V‐ATPase subunits to regulate ecdysone biosynthesis for Drosophila metamorphosis.

Published in:

FASEB Journal, 2020, v. 34, n. 5, p. 6449, doi. 10.1096/fj.201901516R

By:

Lim, Do‐Hwan;
Lee, Seungjae;
Choi, Min‐Seok;
Han, Jee Yun;
Seong, Youngmo;
Na, Dokyun;
Kwon, Young‐Soo;
Lee, Young Sik

Publication type:

Article

Hepatotoxicity assay using human hepatocytes trapped in microholes of a microfluidic device.

Published in:

Electrophoresis, 2010, v. 31, n. 18, p. 3167, doi. 10.1002/elps.201000122

By:

Yeon, Ju Hun;
Na, Dokyun;
Park, Je-Kyun

Publication type:

Article

NFIB induces functional astrocytes from human pluripotent stem cell‐derived neural precursor cells mimicking in vivo astrogliogenesis.

Published in:

Journal of Cellular Physiology, 2021, v. 236, n. 11, p. 7625, doi. 10.1002/jcp.30405

By:

Yeon, Gyu‐Bum;
Shin, Won‐Ho;
Yoo, Seo Hyun;
Kim, Dongyun;
Jeon, Byeong‐Min;
Park, Won‐Ung;
Bae, Yeonju;
Park, Jae‐Yong;
You, Seungkwon;
Na, Dokyun;
Kim, Dae‐Sung

Publication type:

Article

Artificial transformation methodologies for improving the efficiency of plasmid DNA transformation and simplifying its use.

Published in:

Applied Microbiology & Biotechnology, 2019, v. 103, n. 23/24, p. 9205, doi. 10.1007/s00253-019-10173-x

By:

Ren, Jun;
Karna, Sandeep;
Lee, Hyang-Mi;
Yoo, Seung Min;
Na, Dokyun

Publication type:

Article

Design and use of synthetic regulatory small RNAs to control gene expression in Escherichia coli.

Published in:

Nature Protocols, 2013, v. 8, n. 9, p. 1694, doi. 10.1038/nprot.2013.105

By:

Yoo, Seung Min;
Na, Dokyun;
Lee, Sang Yup

Publication type:

Article

Autoinhibited Protein Database: a curated database of autoinhibitory domains and their autoinhibition mechanisms.

Published in:

Database: The Journal of Biological Databases & Curation, 2024, v. 2024, p. 1, doi. 10.1093/database/baae085

By:

Cho, Daeahn;
Lee, Hyang-Mi;
Kim, Ji Ah;
Song, Jae Gwang;
Hwang, Su-hee;
Lee, Bomi;
Park, Jinsil;
Tran, Kha Mong;
Kim, Jiwon;
Vo, Phuong Ngoc Lam;
Bae, Jooeun;
Pimt, Teerapat;
Lee, Kangseok;
Gsponer, Jörg;
Kim, Hyung Wook;
Na, Dokyun

Publication type:

Article

Metabolic engineering of Escherichia coli for the production of phenol from glucose.

Published in:

Biotechnology Journal, 2014, v. 9, n. 5, p. 621, doi. 10.1002/biot.201300263

By:

Kim, Byoungjin;
Park, Hyegwon;
Na, Dokyun;
Lee, Sang Yup

Publication type:

Article

Meeting Report: Cold Spring Harbor Asia - Design and Synthesis of Biological Systems.

Published in:

Biotechnology Journal, 2012, v. 7, n. 7, p. 831, doi. 10.1002/biot.201100490

By:

Na, Dokyun

Publication type:

Article

Anti-Metastatic Effects of Plant Sap-Derived Extracellular Vesicles in a 3D Microfluidic Cancer Metastasis Model.

Published in:

Journal of Functional Biomaterials, 2020, v. 11, n. 3, p. 49, doi. 10.3390/jfb11030049

By:

Kim, Kimin;
Jung, Jik-Han;
Yoo, Hye Ju;
Hyun, Jae-Kyung;
Park, Ji-Ho;
Na, Dokyun;
Yeon, Ju Hun

Publication type:

Article

Cytotoxic Effects of Plant Sap-Derived Extracellular Vesicles on Various Tumor Cell Types.

Published in:

Journal of Functional Biomaterials, 2020, v. 11, n. 2, p. 22, doi. 10.3390/jfb11020022

By:

Kim, Kimin;
Yoo, Hye Ju;
Jung, Jik-Han;
Lee, Ruri;
Hyun, Jae-Kyung;
Park, Ji-Ho;
Na, Dokyun;
Yeon, Ju Hun

Publication type:

Article

Changes in cellular microRNA expression induced by porcine circovirus type 2-encoded proteins.

Published in:

Veterinary Research, 2015, v. 46, n. 1, p. 1, doi. 10.1186/s13567-015-0172-5

By:

Jae-Sang Hong;
Nam-Hoon Kim;
Chang-Yong Choi;
Jun-Seong Lee;
Dokyun Na;
Taehoon Chun;
Young Sik Lee

Publication type:

Article

Optimized expression of Hfq protein increases Escherichia coli growth.

Published in:

Journal of Biological Engineering, 2021, v. 15, n. 1, p. 1, doi. 10.1186/s13036-021-00260-x

By:

VO, Phuong N. L.;
LEE, Hyang-Mi;
REN, Jun;
NA, Dokyun

Publication type:

Article

Enhancement of the solubility of recombinant proteins by fusion with a short-disordered peptide.

Published in:

Journal of Microbiology, 2022, v. 60, n. 9, p. 960, doi. 10.1007/s12275-022-2122-z

By:

Ren, Jun;
Hwang, Suhee;
Shen, Junhao;
Kim, Hyeongwoo;
Kim, Hyunjoo;
Kim, Jieun;
Ahn, Soyoung;
Kim, Min-gyun;
Lee, Seung Ho;
Na, Dokyun

Publication type:

Article

Systems metabolic engineering of microorganisms for natural and non-natural chemicals.

Published in:

Nature Chemical Biology, 2012, v. 8, n. 6, p. 536, doi. 10.1038/nchembio.970

By:

Lee, Jeong Wook;
Na, Dokyun;
Park, Jong Myoung;
Lee, Joungmin;
Choi, Sol;
Lee, Sang Yup

Publication type:

Article

Recent Advances in Micro/Nanomaterial-Based Aptamer Selection Strategies.

Published in:

Molecules, 2021, v. 26, n. 17, p. 5187, doi. 10.3390/molecules26175187

By:

Kim, Dong-Min;
Go, Myeong-June;
Lee, Jingyu;
Na, Dokyun;
Yoo, Seung-Min

Publication type:

Article

Computational Design of a Multi-Epitope Vaccine Against Porphyromonas gingivalis.

Published in:

Frontiers in Immunology, 2022, v. 13, p. 1, doi. 10.3389/fimmu.2022.806825

By:

Shaker, Bilal;
Ahmad, Sajjad;
Shen, Junhao;
Kim, Hyung Wook;
Na, Dokyun

Publication type:

Article

NeuroGeM, a knowledgebase of genetic modifiers in neurodegenerative diseases.

Published in:

BMC Medical Genomics, 2013, v. 6, n. 1, p. 1, doi. 10.1186/1755-8794-6-52

By:

Dokyun Na;
Rouf, Mushfiqur;
O'Kane, Cahir J.;
Rubinsztein, David C.;
Gsponer, Jörg

Publication type:

Article

Metabolic engineering of Escherichia coli using synthetic small regulatory RNAs.

Published in:

Nature Biotechnology, 2013, v. 31, n. 2, p. 170, doi. 10.1038/nbt.2461

By:

Na, Dokyun;
Yoo, Seung Min;
Chung, Hannah;
Park, Hyegwon;
Park, Jin Hwan;
Lee, Sang Yup

Publication type:

Article