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Identification of Molecular Signatures in Mild Intrinsic Atopic Dermatitis by Bioinformatics Analysis

Yin H, Wang S, Gu C

BACKGROUND: Atopic dermatitis (AD) is recognized as a common inflammatory skin disease and frequently occurred in Asian and Black individuals. OBJECTIVE: Since the limitation of dataset associated with human severe AD,...
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Genome Engineering for Osteoarthritis: From Designer Cells to Disease-Modifying Drugs

Choi YR, Collins KH, Lee JW, Kang HJ, Guilak F

BACKGROUND: Osteoarthritis (OA) is a highly prevalent degenerative joint disease involving joint cartilage and its surrounding tissues. OA is the leading cause of pain and disability worldwide. At present, there...
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Gene Regulatory Network Analysis for Triple-Negative Breast Neoplasms by Using Gene Expression Data

Jung HC, Kim SH, Lee JH, Kim JH, Han SW

PURPOSE: To better identify the physiology of triple-negative breast neoplasm (TNBN), we analyzed the TNBN gene regulatory network using gene expression data. METHODS: We collected TNBN gene expression data from The...
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Differential Tissue-specific and Pathway-specific Anti-obesity Effects of Green Tea and Taeumjowitang, a Traditional Korean Medicine, in Mice

Kim J, Park S, An H, Choi JY, Choi MS, Choi SW, Kim SJ

BACKGROUND: Traditional medicines have been leveraged for the treatment and prevention of obesity, one of the fastest growing diseases in the world. However, the exact mechanisms underlying the effects of...
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Transcriptional Network Controlling Endochondral Ossification

Hata K, Takahata Y, Murakami T, Nishimura

Endochondral ossification is the fundamental process of skeletal development in vertebrates. Chondrocytes undergo sequential steps of differentiation, including mesenchymal condensation, proliferation, hypertrophy, and mineralization. These steps, which are required for...
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Bioinformatic identification of prognostic signature defined by copy number alteration and expression of CCNE1 in non-muscle invasive bladder cancer

Song BN, Kim SK, Chu IS

Non-muscle invasive bladder cancer (NMIBC) patients frequently fail to respond to treatment and experience disease progression because of their clinical and biological diversity. In this study, we identify a prognostic...
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A Gene and Neural Stem Cell Therapy Platform Based on Neuronal Cell Type-Inducible Gene Overexpression

Oh J, You Y, Yun Y, Lee HL, Yoon DH, Lee M, Ha Y

PURPOSE: Spinal cord injury (SCI) is associated with permanent neurological damage, and treatment thereof with a single modality often does not provide sufficient therapeutic outcomes. Therefore, a strategy that combines...
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Expressional Subpopulation of Cancers Determined by G64, a Co-regulated Module

Min JW, Choi SS

Studies of cancer heterogeneity have received considerable attention recently, because the presence or absence of resistant sub-clones may determine whether or not certain therapeutic treatments are effective. Previously, we have...
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beta1-integrin-dependent migration of microglia in response to neuron-released alpha-synuclein

Kim C, Cho ED, Kim HK, You S, Lee HJ, Hwang D, Lee SJ

Chronic neuroinflammation is an integral pathological feature of major neurodegenerative diseases. The recruitment of microglia to affected brain regions and the activation of these cells are the major events leading...
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Drug Similarity Search Based on Combined Signatures in Gene Expression Profiles

Cha K, Kim MS, Oh K, Shin H, Yi GS

OBJECTIVES: Recently, comparison of drug responses on gene expression has been a major approach to identifying the functional similarity of drugs. Previous studies have mostly focused on a single feature,...
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Differential expression of thymic DNA repair genes in low-dose-rate irradiated AKR/J mice

Bong JJ, Kang YM, Shin SC, Choi SJ, Lee KM, Kim HS

We previously determined that AKR/J mice housed in a low-dose-rate (LDR) (137Cs, 0.7 mGy/h, 2.1 Gy) gamma-irradiation facility developed less spontaneous thymic lymphoma and survived longer than those receiving sham...
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Differentiated miRNA expression and validation of signaling pathways in apoE gene knockout mice by cross-verification microarray platform

Han H, Wang YH, Qu GJ, Sun TT, Li FQ, Jiang W, Luo SS

  • KMID: 2154232
  • Exp Mol Med.
  • 2013 Mar;45(3):e13.
The microRNA (miRNA) regulation mechanisms associated with atherosclerosis are largely undocumented. Specific selection and efficient validation of miRNA regulation pathways involved in atherosclerosis development may be better assessed by contemporary...
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Review of Biological Network Data and Its Applications

Yu D, Kim M, Xiao G, Hwang TH

Studying biological networks, such as protein-protein interactions, is key to understanding complex biological activities. Various types of large-scale biological datasets have been collected and analyzed with high-throughput technologies, including DNA...
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PromoterWizard: An Integrated Promoter Prediction Program Using Hybrid Methods

Park K, Kim KB

  • KMID: 2053276
  • Genomics Inform.
  • 2011 Dec;9(4):194-196.
Promoter prediction is a very important problem and is closely related to the main problems of bioinformatics such as the construction of gene regulatory networks and gene function annotation. In...
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Directed Causal Network Construction Using Linkage Analysis with Metabolic Syndrome-Related Expression Quantitative Traits

Kim KZ, Min JY, Kwon GY, Sung J, Cho SI

  • KMID: 2053270
  • Genomics Inform.
  • 2011 Dec;9(4):143-151.
In this study, we propose a novel, intuitive method of constructing an expression quantitative trait (eQT) network that is related to the metabolic syndrome using LOD scores and peak loci...
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Integrative epigenomic and genomic analysis of malignant pheochromocytoma

Sandgren J, Andersson , Rada-Iglesias A, Enroth S, Akerstrom , Dumanski J, Komorowski J, Westin G, Wadelius C

Epigenomic and genomic changes affect gene expression and contribute to tumor development. The histone modifications trimethylated histone H3 lysine 4 (H3K4me3) and lysine 27 (H3K27me3) are epigenetic regulators associated to...
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Analysis of Gene Expression in Mouse Spinal Cord-derived Neural Precursor Cells During Neuronal Differentiation

Ahn JI, Kim SY, Ko MJ, Chung HJ, Jeong HS

  • KMID: 2053227
  • Genomics Inform.
  • 2009 Jun;7(2):85-96.
The differentiation of neural precursor cells (NPCs) into neurons and astrocytes is a process that is tightly controlled by complicated and ill-defined gene networks. To extend our knowledge to gene...
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StrokeBase: A Database of Cerebrovascular Disease-related Candidate Genes

Kim YU, Kim IH, Bang OS, Kim YJ

  • KMID: 2166413
  • Genomics Inform.
  • 2008 Sep;6(3):153-156.
Complex diseases such as stroke and cancer have two or more genetic loci and are affected by environmental factors that contribute to the diseases. Due to the complex characteristics of...
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