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Identification of a Novel Splice Variant (c.423-8A>G) of APC by RNA Sequencing

Kim A, Kim HK, Ahn S, Hong YS, Lim SB, Byeon JS, Chun S, Min WK, Lee W

No abstract available.
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Understanding the Molecular Mechanisms of Asthma through Transcriptomics

Park HW, Weiss ST

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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Review of a novel disease entity, immunoglobulin G4-related disease

Maehara T, Moriyama M, Nakamura S

Immunoglobulin G4 (IgG4)-related dacryoadenitis and sialoadenitis (IgG4-DS) are part of a multiorgan fibroinflammatory condition of unknown etiology termed IgG4-related disease (IgG4-RD), which has been recognized as a single diagnostic entity...
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Rapid Whole-genome Sequencing of Zika Viruses using Direct RNA Sequencing

Kim JH, Kim J, Koo BS, Oh H, Hong JJ, Hwang ES

Zika virus (ZIKV) is one of the pathogens which is transmitted world widely, but there are no effective drugs and vaccines. Whole genome sequencing (WGS) of viruses could be applied...
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Comparison of the MGISEQ-2000 and Illumina HiSeq 4000 sequencing platforms for RNA sequencing

Jeon SA, Park JL, Kim JH, Kim JH, Kim YS, Kim JC, Kim SY

Currently, Illumina sequencers are the globally leading sequencing platform in the next-generation sequencing market. Recently, MGI Tech launched a series of new sequencers, including the MGISEQ-2000, which promise to deliver...
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FusionScan: accurate prediction of fusion genes from RNA-Seq data

Kim P, Jang YE, Lee S

Identification of fusion gene is of prominent importance in cancer research field because of their potential as carcinogenic drivers. RNA sequencing (RNA-Seq) data have been the most useful source for...
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Identification of neoantigens derived from alternative splicing and RNA modification

Park J, Chung YJ

The acquisition of somatic mutations is the most common event in cancer. Neoantigens expressed from genes with mutations acquired during carcinogenesis can be tumor-specific. Since the immune system recognizes tumor-specific...
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Transcriptome Analysis Identifies an Attenuated Local Immune Response in Invasive Nonfunctioning Pituitary Adenomas

Kim YH, Kim JH

BACKGROUND: Invasive nonfunctioning pituitary adenomas (NFPAs) remain challenging due to their high complication rate and poor prognosis. We aimed to identify the distinctive molecular signatures of invasive NFPAs, compared with...
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Single Cell RNA-Sequencing for the Study of Atherosclerosis

Hajkarim M, Won KJ

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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No Causal Link between Phosphodiesterase Type 5 Inhibition and Melanoma

Wang JZ, Le S, Alexanian , Boddu S, Merleev A, Marusina A, Maverakis

PURPOSE: To examine the association between phosphodiesterase type 5 (PDE5) inhibitor use and melanoma by 1) conducting a systematic review of observational studies; and 2) determining if low PDE5A gene...
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Alterations in PD-L1 Expression Associated with Acquisition of Resistance to ALK Inhibitors in ALK-Rearranged Lung Cancer

Kim SJ, Kim S, Kim DW, Kim M, Keam B, Kim TM, Lee Y, Koh J, Jeon YK, Heo DS

PURPOSE: The purpose of this study was to evaluate the relationships between the resistance of anaplastic lymphoma kinase (ALK)‒positive non-small cell lung cancer (NSCLC) to ALK inhibitors and the programmed...
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Genetic Profiles Associated with Chemoresistance in Patient-Derived Xenograft Models of Ovarian Cancer

Li LY, Kim HJ, Park SA, Lee SH, Kim LK, Lee JY, Kim S, Kim YT, Kim SW, Nam EJ

PURPOSE: Recurrence and chemoresistance (CR) are the leading causes of death in patients with high-grade serous carcinoma (HGSC) of the ovary. The aim of this study was to identify genetic...
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Genetic features associated with ¹⁸F-FDG uptake in intrahepatic cholangiocarcinoma

Ahn KS, Kang KJ, Kim YH, Kim TS, Song BI, Kim HW, O'Brien D, Roberts LR, Lee JW, Won KS

PURPOSE: In intrahepatic cholangiocarcinoma (iCCA), genetic characteristics on ¹⁸F-fluorodeoxyglucose (¹⁸F-FDG)-PET scans are not yet clarified. If specific genetic characteristics were found to be related to FDG uptake in iCCA, we...
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Identification of ERBB Pathway-Activated Cells in Triple-Negative Breast Cancer

Cho SY

Intratumor heterogeneity within a single tumor mass is one of the hallmarks of malignancy and has been reported in various tumor types. The molecular characterization of intratumor heterogeneity in breast...
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Effect of Substrate Topography and Chemistry on Human Mesenchymal Stem Cell Markers: A Transcriptome Study

Zhang B, Kasoju N, Li Q, Ma J, Yang A, Cui Z, Wang H, Ye H

BACKGROUND AND OBJECTIVES: The International Society for Cellular Therapy (ISCT) proposed a set of minimal markers for identifying human mesenchymal stromal cells (hMSCs) in 2007. Since then, with the growing...
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Prediction of itching diagnostic marker through RNA sequencing of contact hypersensitivity and skin scratching stimulation mice models

Kim YW, Zhou T, Ko EA, Kim S, Lee D, Seo Y, Kwon N, Choi T, Lim H, Cho S, Bae G, Hwang Y, Kim D, Park H, Lee M, Jang E, Choi J, Bae H, Lim I, Bang H, Ko JH

Pruritus (itching) is classically defined as an unpleasant cutaneous sensation that leads to scratching behavior. Although the scientific criteria of classification for pruritic diseases are not clear, it can be...
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Next generation sequencing and anti-cancer therapy

Sohn J

Over the last two decades, the systemic treatment of cancer has evolved from cytotoxic chemotherapy to targeted therapy and now immunotherapy. Next-generation sequencing (NGS) is entering clinical applications for cancer...
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HisCoM-PAGE: software for hierarchical structural component models for pathway analysis of gene expression data

Mok L, Park T

To identify pathways associated with survival phenotypes using gene expression data, we recently proposed the hierarchical structural component model for pathway analysis of gene expression data (HisCoM-PAGE) method. The HisCoM-PAGE...
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Analysis of Intestinal Mucosal Microbiome Changes before and after Chemoradiation in Locally Advanced Rectal Cancer Patients

Seo I, Bae SU, Kim S, Jeong WK, Baek SK

PURPOSE: Dysbiosis of gut microbiota has been reported to participate in the pathogenesis of colorectal cancer, but changes in microbiota due to radiotherapy have not been studied. In this study,...
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Small RNA sequencing profiles of mir-181 and mir-221, the most relevant microRNAs in acute myeloid leukemia

Lee YG, Kim I, Oh S, Shin DY, Koh Y, Lee KW

BACKGROUND/AIMS: To evaluate and select microRNAs relevant to acute myeloid leukemia (AML) pathogenesis, we analyzed differential microRNA expression by quantitative small RNA next-generation sequencing using duplicate marrow samples from individual...
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