- A Review of Three Different Studies on Hidden Markov Models for Epigenetic Problems: A Computational Perspective
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Lee KE, Park HS
- KMID: 2391489
- Genomics Inform.
- 2014 Dec;12(4):145-150.
- doi: 10.5808/GI.2014.12.4.145
Recent technical advances, such as chromatin immunoprecipitation combined with DNA microarrays (ChIp-chip) and chromatin immunoprecipitation-sequencing (ChIP-seq), have generated large quantities of high-throughput data. Considering that epigenomic datasets are arranged over... -
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- A ChIP-Seq Data Analysis Pipeline Based on Bioconductor Packages
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Park SJ, Kim JH, Yoon BH, Kim SY
- KMID: 2375580
- Genomics Inform.
- 2017 Mar;15(1):11-18.
- doi: 10.5808/GI.2017.15.1.11
Nowadays, huge volumes of chromatin immunoprecipitation-sequencing (ChIP-Seq) data are generated to increase the knowledge on DNA-protein interactions in the cell, and accordingly, many tools have been developed for ChIP-Seq analysis.... -
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- Identification of hRad21-Binding Sites in Human Chromosome
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Chin C, Chung BS
- KMID: 2166189
- Genomics Inform.
- 2006 Mar;4(1):11-15.
The aim of this study is to identify hRad21-binding sites in human chromosome, the core component of cohesin complex that held sister chromatids together. After chromatin immunoprecipitation with an hRad21... -
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- Characterization of Chromatin Structure-associated Histone Modifications in Breast Cancer Cells
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Hong CP, Choe MK, Roh TY
- KMID: 1806243
- Genomics Inform.
- 2012 Sep;10(3):145-152.
- doi: 10.5808/GI.2012.10.3.145
Chromatin structure and dynamics that are influenced by epigenetic marks, such as histone modification and DNA methylation, play a crucial role in modulating gene transcription. To understand the relationship between... -
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- Functional Interaction of HIF-1 and NF-kappaB Increasing the Transcriptional Activation of TNF-alpha Gene in Monocytes
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Park MJ, Lee SM, Ok SJ, Kim HR, Kim HH, Cheong JH
- KMID: 1424262
- Korean J Blood Transfus.
- 2013 Apr;24(1):21-32.
BACKGROUND: Tumor necrosis factor alpha (TNF-alpha) is a pleiotropic cytokine fulfilling a broad variety of immunoregulatory functions. Monocytes and macrophages play a pivotal role in inflammation and immune regulation. NF-kappaB... -
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- CpG Array Analysis of Histone H3 Lysine 4 Trimethylation by Chromatin Immunoprecipitation Linked to Microarrays Analysis in Peripheral Blood Mononuclear Cells of IgA Nephropathy Patients
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Qi S, Sui W, Yang M, Chen J, Dai Y
- KMID: 1120206
- Yonsei Med J.
- 2012 Mar;53(2):377-385.
- doi: 10.3349/ymj.2012.53.2.377
PURPOSE: The purpose of the present study was to investigate the aberrance of histone H3 lysine 4 trimethylation (H3K4me3) in patients with IgA Nephropathy (IgAN). MATERIALS AND METHODS: In this study,... -
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- Nkx-2.5 Regulates MDR1 Expression via Its Upstream Promoter in Breast Cancer Cells
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Lim JS, Jung GY, Park SY
- KMID: 2442099
- J Korean Med Sci.
- 2019 Apr;34(12):e100.
- doi: 10.3346/jkms.2019.34.e100
BACKGROUND: Increased expression of MDR1 gene is one of the major mechanisms responsible for multidrug resistance in cancer cells. Two alternative promoters, upstream and downstream, are responsible for transcription of... -
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- Trends in Next-Generation Sequencing and a New Era for Whole Genome Sequencing
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Park ST, Kim J
- KMID: 2362500
- Int Neurourol J.
- 2016 Nov;20(Suppl 2):S76-S83.
- doi: 10.5213/inj.1632742.371
This article is a mini-review that provides a general overview for next-generation sequencing (NGS) and introduces one of the most popular NGS applications, whole genome sequencing (WGS), developed from the... -
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- Long Noncoding RNA HEIH Promotes Colorectal Cancer Tumorigenesis via Counteracting miR-939-Mediated Transcriptional Repression of Bcl-xL
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Cui C, Zhai D, Cai L, Duan Q, Xie L, Yu J
- KMID: 2417888
- Cancer Res Treat.
- 2018 Jul;50(3):992-1008.
- doi: 10.4143/crt.2017.226
PURPOSE: Studies have found that long noncoding RNA HEIH (lncRNA-HEIH) is upregulated and facilitates hepatocellular carcinoma tumor growth. However, its clinical significances, roles, and action mechanism in colorectal cancer (CRC)... -
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- Identification and characterization of peroxisome proliferator response element in the mouse GLUT2 promoter
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Im SS, Kim JW, Kim TH, Song XL, Kim SY, Kim HI, Ahn YH
- KMID: 755748
- Exp Mol Med.
- 2005 Apr;37(2):101-110.
In the present study, we show that the expression of type 2 glucose transporter isoform (GLUT2) could be regulated by PPAR-gamma in the liver. Rosiglitazone, PPAR-gamma agonist, activated the GLUT2... -
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- Pseudolaric acid B inhibits PAX2 expression through Wnt signaling and induces BAX expression, therefore promoting apoptosis in HeLa cervical cancer cells
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Guan D, Li C, Lv X, Yang Y
- KMID: 2457155
- J Gynecol Oncol.
- 2019 Sep;30(5):e77.
- doi: 10.3802/jgo.2019.30.e77
OBJECTIVES: Pseudolaric acid B (PAB) has been shown to inhibit the growth of various tumor cells, but the molecular details of its function are still unknown. This study investigated the... -
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- Participation of GATA-3 in regulation of bone healing through transcriptional upregulation of bcl-x(L) expression
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Liao MH, Lin PI, Ho WP, Chan WP, Chen TL, Chen RM
- KMID: 2396803
- Exp Mol Med.
- 2017 Nov;49(11):e398.
- doi: 10.1038/emm.2017.182
We have previously demonstrated the expression of GATA-DNA-binding protein (GATA)-3, a transcription factor, in osteoblasts and have verified its function in transducing cell survival signaling. This translational study was further... -
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- NFATc1 and NFATc3 is Involved in the Expression of Receptor Activator of NF-kappaB Ligand in Activated T Lymphocytes
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Heo SJ, Park HJ, Baek JH
- KMID: 1431127
- Int J Oral Biol.
- 2013 Mar;38(1):37-42.
Receptor activator of NF-kappaB ligand (RANKL) is an essential cytokine for osteoclast differentiation, activation and survival. T lymphocytes such as T17 cells, a subset of T helper cells that produce... -
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- Tumor Necrosis Factor alpha up-regulates the Expression of beta2 Adrenergic Receptor via NF-kappaB-dependent Pathway in Osteoblasts
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Baek K, Kang J, Hwang HR, Baek JH
- KMID: 2170782
- Int J Oral Biol.
- 2013 Sep;38(3):121-126.
Tumor necrosis factor alpha (TNFalpha) is a multifunctional inflammatory cytokine that regulates various cellular and biological processes. Increased levels of TNFalpha have been implicated in a number of human diseases... -
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- miR-148a is a downstream effector of X-box-binding protein 1 that silences Wnt10b during adipogenesis of 3T3-L1 cells
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Cho YM, Kim TM, Kim DH, Kim DH, Jeong SW, Kwon OJ
- KMID: 2361513
- Exp Mol Med.
- 2016 Apr;48(4):e226.
- doi: 10.1038/emm.2016.3
Wnt10b, an endogenous inhibitor of adipogenesis, maintains preadipocytes in an undifferentiated state by suppressing adipogenic transcription factors. We have previously demonstrated that Wnt10b transcription during adipogenesis is negatively regulated by... -
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- Aberrant Epigenetic Modifications of LPHN2 Function as a Potential Cisplatin-Specific Biomarker for Human Gastrointestinal Cancer
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Jeon MS, Song SH, Yun J, Kang JY, Kim HP, Han SW, Kim TY
- KMID: 2454346
- Cancer Res Treat.
- 2016 Apr;48(2):676-686.
- doi: 10.4143/crt.2015.153
PURPOSE: Epigenetic alterations of specific genes have recently been identified as diagnostic biomarkers for human cancers. However, there are currently no standardized epigenetic biomarkers for drug sensitivity in human gastrointestinal... -
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- Thyroid Hormone Receptor Dynamics in Thyroid Hormone Response Elements of the Human Type 1 Iodothyronine Deiodinase Gene
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Lee SJ, Park CY, Jeong IK, Hong EG, Choi CS, Kim HK, Kim DM, Yoo JM, Ihm SH, Choi MG, Yoo HJ, Park SW, Larsen PR
- KMID: 2200307
- J Korean Soc Endocrinol.
- 2003 Jun;18(3):283-295.
BACKGROUND: Type 1 iodothyronine deiodinase (D1), the product of the hdio1 gene, is involved in thyroid hormone activation by the deiodination of thyroxine (T4) to form 3, 5, 3'-triiodothyronine (T3).... -
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- Eupatilin Inhibits Gastric Cancer Cell Growth by Blocking STAT3-Mediated VEGF Expression
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Cheong JH, Hong SY, Zheng Y, Noh SH
- KMID: 2372266
- J Gastric Cancer.
- 2011 Mar;11(1):16-22.
PURPOSE: Eupatilin is an antioxidative flavone and a phytopharmaceutical derived from Artemisia asiatica. It has been reported to possess anti-tumor activity in some types of cancer including gastric cancer. Eupatilin... -
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- Histone Deacetylase-3 Modification of MicroRNA-31 Promotes Cell Proliferation and Aerobic Glycolysis in Breast Cancer and Is Predictive of Poor Prognosis
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Zhao Y, He J, Yang L, Luo Q, Liu Z
- KMID: 2413929
- J Breast Cancer.
- 2018 Jun;21(2):112-123.
- doi: 10.4048/jbc.2018.21.2.112
PURPOSE: The incidence and mortality of breast cancer is increasing worldwide. There is a constant quest to understand the underlying molecular biology of breast cancer so as to plan better... -
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- Beta-Defensin 124 Is Required for Efficient Innate Immune Responses in Prostate Epithelial RWPE-1 Cells
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Kim KH, Lee J, Han JH, Myung SC
- KMID: 1885622
- Korean J Urol.
- 2014 Jun;55(6):417-425.
- doi: 10.4111/kju.2014.55.6.417
PURPOSE: The present study aimed to determine the role played by beta-defensin 124 (DEFB124) in the innate immunity of prostate epithelial RWPE-1 cells during bacterial infection. MATERIALS AND METHODS: The expression... -
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