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Sample GSM2154741 Query DataSets for GSM2154741
Status Public on May 28, 2018
Title H3122_LR_Pano_H3K27ac_ChIP-seq
Sample type SRA
Source name H3122 lung cancer cell line
Organism Homo sapiens
Characteristics cell line: H3122
treatment: Certinib + Panobinostat
Extracted molecule genomic DNA
Extraction protocol Standard DNA extraction protocol using Qiagen prep kit.
Libraries were prepared according to Illumina's instructions.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NextSeq 500
Data processing Base calling performed using CASAVA version 1.7
The sequencing reads were aligned to the reference sequence (hg 19) using the Bowtie2 (v.2.2.2) software.
Finding, estimation and annotation of ChIP-seq peaks were carried out by the Homer (v.4.8.2) platform.
ChIP-fragment density at each position in the genome was estimated by starting with each tag and extending it by the estimated fragment length determined by autocorrelation.
The ChIP-fragment density is then defined as the total number of overlapping fragments at each position in the genome.
Genome_build: hg19
Supplementary_files_format_and_content: bedGraph files were generated by makeUCSCfile module in the Hommer software. Scores represent ChIP-seq density value as described in data processing step.
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
Platform ID GPL18573
Series (2)
GSE81482 ChIP-seq for identifying molecules associated with epithelial-mesenchymal transition and acquired resistance to ALK inhibitors
GSE81487 Epithelial-mesenchymal transition and acquired resistance to ALK inhibitors
BioSample SAMN05003677
SRA SRX1769320

Supplementary file Size Download File type/resource
GSM2154741_H3122_LR_Pano_K27ac.bedGraph.gz 34.3 Mb (ftp)(http) BEDGRAPH
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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