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Sample GSM1867915 Query DataSets for GSM1867915
Status Public on Mar 17, 2016
Title input DNA
Sample type SRA
Source name S2 cell
Organism Drosophila melanogaster
Characteristics chip antibody: none
Treatment protocol S2 cells (2 x 107) were plated in 5 ml of 1x Schneider’s Drosophila medium without FBS in 10-cm dishes. dsRNA of EGFP was added at 26 °C for 6 h, followed by 5 ml of 1x Schneider’s Drosophila medium with 10% FBS. The cells were then incubated for an additional 72 h to allow for turnover of the target mRNA.
Growth protocol S2 cells were grown at 26 °C in Schneider’s Drosophila media (Gibco), supplemented with 10% FBS.
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from Mnase digested nuclei and histone-DNA complexes were isolated with antibody.
ChIP-seq libraries were prepared using TruSeq ChIP Sample Prep Kit (Illumina) according to the manufacture’s instruction.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina MiSeq
Data processing Basecalls performed using Illumina Miseq/Real Time Analysis.
ChIP-seq reads were aligned to the dm6 genome assembly using Burrows-Wheeler Alignment v0.7.5 (BWA) program, with default "aln" and "sames" parameters.
ChIP peaks were called using Model-based Alignment of ChIP-Seq (MACS) program with the following setting: macs, t, treatment_bamfile; c, control_bamfile; bdg; P=0.05
Genome_build: dm6
Supplementary_files_format_and_content: xls files were generated using MACS program and csv files were generated using R-package ChippeakAnno.
Submission date Sep 02, 2015
Last update date May 15, 2019
Contact name Masamichi Doiguchi
Organization name University of Nagasaki
Street address Sakamoto 1-12-4
City Nagasaki
ZIP/Postal code 852-8523
Country Japan
Platform ID GPL16479
Series (1)
GSE72666 High-throughput sequence data of ChIP performed with anti-SMARCAD1 (ASNA) or anti-CBP actibodies.
BioSample SAMN04027503
SRA SRX1179571

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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