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Series GSE81483 Query DataSets for GSE81483
Status Public on May 28, 2018
Title Methylation profiling study by MBD-seq for identifying genes associated with epithelial-mesenchymal transition and acquired resistance to ALK inhibitors
Organism Homo sapiens
Experiment type Methylation profiling by high throughput sequencing
Summary Treatment with ALK tyrosine kinase inhibitors often elicits profound initial antitumor responses in ALK fusion-positive patients with lung adenocarcinoma. However, patients invariably develop acquired resistance to ALK inhibitors. In this study, we aimed to identify molecular events that limit the response to ALK inhibition using genetic and epigenetic approaches. To identify novel mechanisms of acquired resistance to ALK inhibitors, we established in vitro models of acquired resistance to ceritinib using H3122 cell. For in vitro model, H3122 parental cells, ceritinib-treated resistant cells, and non-resistant cells that combinely treated with certinib and panobinostat were used for MBD-seq based methylation profiling.
Overall design MBD-seq data of 6 samples, two H3122 parental cells, two ceritinib-treated resistant cells, and two non-resistant cells that combinely treated with certinib and panobinostat, were generated. Methylated DNA was precipitated using the MethylMiner methylated DNA enrichment kit (Invitrogen). The purified methylated DNA fragments were ligated to a pair of adaptors. Sequencing was performed in single end reads (75 bp) using NextSeq 500 platform (Illumina).
Contributor(s) Kim J, Kim S, Kim M, Yun M, Lim S, Cho B
Citation(s) 29669761
Submission date May 16, 2016
Last update date May 15, 2019
Contact name Seon-Kyu Kim
Phone +82-42-879-8107
Organization name Korea Research Institutue of Bioscience & Biotechnology
Department Personalized Genomic Medicine Research Center
Street address 125 Gwahak-ro, Yuseong-gu, Daejeon 305-806, Korea
City Daejeon
ZIP/Postal code 305-806
Country South Korea
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (6)
GSM2154742 H3122-1_MBD-seq
GSM2154743 H3122_LR-1_MBD-seq
GSM2154744 H3122_LR_Pano-1_MBD-seq
This SubSeries is part of SuperSeries:
GSE81487 Epithelial-mesenchymal transition and acquired resistance to ALK inhibitors
BioProject PRJNA321748
SRA SRP075252

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Supplementary file Size Download File type/resource
GSE81483_RAW.tar 87.9 Mb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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