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Series GSE81482 Query DataSets for GSE81482
Status Public on May 28, 2018
Title ChIP-seq for identifying molecules associated with epithelial-mesenchymal transition and acquired resistance to ALK inhibitors
Organism Homo sapiens
Experiment type Genome binding/occupancy 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 ChIP-seq analysis.
Overall design ChIP-sequencing was performed in each cell group. Cells were fixed using 1% formaldehyde, lysed and sonicated using a Bioruptor (Diagenode Inc.). Immunoprecipitation was performed with anti-H3K27ac(Millipore, 06-599) or anti-H3K4me1(Abcam, ab8895). 250-400 bp genomic libraries were generated from the input and immunoprecipitated DNA and sequenced using Illumina NextSeq500 to generate 75 bp single-end reads.
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 (8)
GSM2154734 H3122_input_ChIP-seq
GSM2154735 H3122_H3K27Ac_ChIP-seq
GSM2154736 H3122_H3K4me1_ChIP-seq
This SubSeries is part of SuperSeries:
GSE81487 Epithelial-mesenchymal transition and acquired resistance to ALK inhibitors
BioProject PRJNA321749
SRA SRP075251

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Supplementary file Size Download File type/resource
GSE81482_RAW.tar 473.0 Mb (http)(custom) TAR (of BEDGRAPH)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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