- Analysis of Whole Transcriptome Sequencing Data: Workflow and Software
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Yang IS, Kim S
- KMID: 2166526
- Genomics Inform.
- 2015 Dec;13(4):119-125.
- doi: 10.5808/GI.2015.13.4.119
RNA is a polymeric molecule implicated in various biological processes, such as the coding, decoding, regulation, and expression of genes. Numerous studies have examined RNA features using whole transcriptome sequencing... -
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- Microarray Analysis on Allergic Inflammation
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- KMID: 2234219
- Korean J Asthma Allergy Clin Immunol.
- 2004 Dec;24(4):361-367.
It became possible to see all the expressed genes present in a cell (transcriptome) at once using microarray. We have applied microarray technology to various studies regarding allergic diseases. Although... -
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- Human Transcriptome and Chromatin Modifications: An ENCODE Perspective
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Shen L, Choi I, Nestler EJ, Won KJ
- KMID: 1494258
- Genomics Inform.
- 2013 Jun;11(2):60-67.
- doi: 10.5808/GI.2013.11.2.60
A decade-long project, led by several international research groups, called the Encyclopedia of DNA Elements (ENCODE), recently released an unprecedented amount of data. The ambitious project covers transcriptome, cistrome, epigenome,... -
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- Understanding the Molecular Mechanisms of Asthma through Transcriptomics
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Park HW, Weiss ST
- KMID: 2471225
- Allergy Asthma Immunol Res.
- 2020 May;12(3):399-411.
- doi: 10.4168/aair.2020.12.3.399
The transcriptome represents the complete set of RNA transcripts that are produced by the genome under a specific circumstance or in a specific cell. High-throughput methods, including microarray and bulk... -
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- Evaluation and Interpretation of Transcriptome Data Underlying Heterogeneous Chronic Obstructive Pulmonary Disease
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Ham S, Oh YM, Roh TY
- KMID: 2447792
- Genomics Inform.
- 2019 Mar;17(1):e2.
- doi: 10.5808/GI.2019.17.1.e2
Chronic obstructive pulmonary disease (COPD) is a type of progressive lung disease, featured by airflow obstruction. Recently, a comprehensive analysis of the transcriptome in lung tissue of COPD patients was... -
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- Impact of Time Delay in Processing Blood Sample on Next Generation Sequencing for Transcriptome Analysis
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Lee JE, Jung SY, Shin SY, Kim YY
- KMID: 2416896
- Osong Public Health Res Perspect.
- 2018 Jun;9(3):130-132.
- doi: 10.24171/j.phrp.2018.9.3.09
No abstract available. -
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- Translational Application of Single-cell Transcriptomic Analysis in Hepatocellular Carcinoma
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Yoon SK
- KMID: 2409642
- J Liver Cancer.
- 2018 Mar;18(1):1-8.
- doi: 10.17998/jlc.18.1.1
The emergence of single-cell technology in recent years has made remarkable progress for understanding of biological process in various diseases including cancers. In particular of cancer, single-cell transcriptome analysis provides... -
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- Single Cell RNA-Sequencing for the Study of Atherosclerosis
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Hajkarim M, Won KJ
- KMID: 2458380
- J Lipid Atheroscler.
- 2019 Sep;8(2):152-161.
- doi: 10.12997/jla.2019.8.2.152
Atherosclerosis is a major cause of coronary artery disease and stroke. A massive and new type of data has finally arrived in the field of atherosclerosis: single cell RNA sequencing... -
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- Blood Transcriptome Profiling in Myasthenia Gravis Patients to Assess Disease Activity: A Pilot RNA-seq Study
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Park KH, Jung J, Lee JH, Hong YH
- KMID: 2165577
- Exp Neurobiol.
- 2016 Feb;25(1):40-47.
- doi: 10.5607/en.2016.25.1.40
Myasthenia gravis (MG) is an antibody-mediated autoimmune disease characterized by exertional weakness. There is no biomarker to reflect disease activity and guide treatment decision. Here, we reported a pilot blood... -
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- RNA sequencing of the nephron transcriptome: a technical note
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Lee JW
- KMID: 2381547
- Kidney Res Clin Pract.
- 2015 Dec;34(4):219-227.
- doi: 10.1016/j.krcp.2015.08.008
To understand the functions of the kidney, the transcriptome of each part of the nephron needs to be profiled using a highly sensitive and unbiased tool. RNA sequencing (RNA-seq) has... -
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- De novo transcriptome sequencing and gene expression profiling with/without B-chromosome plants of Lilium amabile
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Park D, Kim JH, Kim NS
- KMID: 2462041
- Genomics Inform.
- 2019 Sep;17(3):e27.
- doi: 10.5808/GI.2019.17.3.e27
Supernumerary B chromosomes were found in Lilium amabile (2n = 2x = 24), an endemic Korean lily that grows in the wild throughout the Korean Peninsula. The extra B chromosomes... -
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- Current Challenges in Bacterial Transcriptomics
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Cho S, Cho Y, Lee S, Kim J, Yum H, Kim SC, Cho BK
- KMID: 1494260
- Genomics Inform.
- 2013 Jun;11(2):76-82.
- doi: 10.5808/GI.2013.11.2.76
Over the past decade or so, dramatic developments in our ability to experimentally determine the content and function of genomes have taken place. In particular, next-generation sequencing technologies are now... -
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- Transcriptome Profiling of Kidney Tissue from FGS/kist Mice, the Korean Animal Model of Focal Segmental Glomerulosclerosis
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Kang HG, Lee BS, Lee CH, Ha IS, Cheong HI, Choi Y
- KMID: 1442144
- J Korean Soc Pediatr Nephrol.
- 2011 Apr;15(1):38-48.
- doi: 10.3339/jkspn.2011.15.1.38
PURPOSE: Focal segmental glomerulosclerosis (FSGS) is the most common glomerulopathy causing pediatric renal failure. Since specific treatment targeting the etiology and pathophysiology of primary FSGS is yet elusive, the authors... -
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- Classification of Genes Based on Age-Related Differential Expression in Breast Cancer
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Lee G, Lee M
- KMID: 2404053
- Genomics Inform.
- 2017 Dec;15(4):156-161.
- doi: 10.5808/GI.2017.15.4.156
Transcriptome analysis has been widely used to make biomarker panels to diagnose cancers. In breast cancer, the age of the patient has been known to be associated with clinical features.... -
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- Delineating inflammatory bowel disease through transcriptomic studies: current review of progress and evidence
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Chan SN, Low EN, Raja Ali R, Mokhtar NM
- KMID: 2417649
- Intest Res.
- 2018 Jul;16(3):374-383.
- doi: 10.5217/ir.2018.16.3.374
Inflammatory bowel disease (IBD), which comprises of Crohn's disease and ulcerative colitis, is an idiopathic relapsing and remitting disease in which the interplay of different environment, microbial, immunological and genetic... -
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- Select Macrophage Noncoding RNAs of Interest in Cardiovascular Disease
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Enchill Z, Lantz C, Thorp EB
- KMID: 2470807
- J Lipid Atheroscler.
- 2020 Jan;9(1):153-161.
- doi: 10.12997/jla.2020.9.1.153
Cardiovascular disease remains a leading cause of morbidity and mortality worldwide. Aspects of disease severity that are associated with heightened inflammation, such as during atherosclerosis or after myocardial infarction, are... -
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- Dynamic Transcriptional Events in Distal Sural Nerve Revealed by Transcriptome Analysis
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Hong YB, Jung SC, Lee J, Moon HS, Chung KW, Choi BO
- KMID: 2165518
- Exp Neurobiol.
- 2014 Jun;23(2):169-172.
- doi: 10.5607/en.2014.23.2.169
Compared with biochemical information available about the diseases in the central nervous system, that for peripheral neuropathy is quite limited primarily due to the difficulties in obtaining samples. Characterization of... -
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- RNA-Seq De Novo Assembly and Differential Transcriptome Analysis of Korean Medicinal Herb Cirsium japonicum var. spinossimum
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Roy NS, Kim JA, Choi AY, Ban YW, Park NI, Park KC, Yang HS, Choi IY, Kim S
- KMID: 2439224
- Genomics Inform.
- 2018 Dec;16(4):e34.
- doi: 10.5808/GI.2018.16.4.e34
Cirsium japonicum belongs to the Asteraceae or Compositae family and is a medicinal plant in Asia that has a variety of effects, including tumour inhibition, improved immunity with flavones, and... -
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- Blood transcriptome resources of chinstrap (Pygoscelis antarcticus) and gentoo (Pygoscelis papua) penguins from the South Shetland Islands, Antarctica
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Kim BM, Jeong J, Jo E, Ahn DH, Kim JH, Rhee JS, Park H
- KMID: 2447795
- Genomics Inform.
- 2019 Mar;17(1):e5.
- doi: 10.5808/GI.2019.17.1.e5
The chinstrap (Pygoscelis antarcticus) and gentoo (P. papua) penguins are distributed throughout Antarctica and the sub-Antarctic islands. In this study, high-quality de novo assemblies of blood transcriptomes from these penguins... -
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- Transcriptome analysis reveals stimulus-specific functions of glutamylprolyl-tRNA synthetase
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Lee EY, Kim HK, Lee JS, Kim MH
- KMID: 2368695
- J Biomed Transl Res.
- 2016 Dec;17(4):126-131.
- doi: 10.12729/jbtr.2016.17.4.126
The aminoacyl-tRNA synthetases (ARSs) are ancient house-keeping enzymes that catalyze the ligation of tRNAs to their cognate amino acids in the first step of protein synthesis. During the evolution of... -
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