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Sample GSM4460499 Query DataSets for GSM4460499
Status Public on Dec 07, 2020
Title N2 + ev, 1
Sample type SRA
 
Source name N2 + ev
Organism Caenorhabditis elegans
Characteristics strain: N2
RNAi clone: E. coli HT115
genotype: Wild-type
stage at harvesting: L4/young adult
antibody: IP with H3K18Ac antibody
Treatment protocol RNAi treatment was started from the egg phase and treated until worms reached L4/young adult phase and then collected in 15 mL tubes
Growth protocol Worms were synchronized by bleaching. Synchronized worm eggs were plated in NGM plates under the described conditions and raised at 20 ̊C.
Extracted molecule genomic DNA
Extraction protocol Worms were harvested and washed with M9 buffer for three times. Worms were then fixed with 1% formaldehyde in PBS for 30 min, and quenched by glycine. Immunoprecipitaion were carried by using the antibodies against H3K18Ac (Cat. 07-354, Merck) or H3K27Ac (Ab4729, abcam).
Libraries were prepared for sequencing using standard BGISeq500 protocol
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model BGISEQ-500
 
Data processing After sequencing on the BGIseq-500 platform, FastQC was used to verify the quality of the mapping. No low-quality reads were present and no trimming was needed.
Alignment was performed against C. elegans genome (WBcel235 ce11 top-level and Ensembl release 89 annotation) following the bowtie2 (version 2.3.5) manual guidelines with default parameters.
SAMtools (version 1.4.1) was used to sort, filter and index the obtained alignments. Peak calling was then performed using MACS2 (version 2.1.2) between samples of interest.
Genome_build: Caenorhabditis_elegans.WBcel235.89
Supplementary_files_format_and_content: xlsx file with peak counts identified for each group
 
Submission date Apr 08, 2020
Last update date Dec 07, 2020
Contact name Terytty Yang Li
E-mail(s) teryttyliyang@fudan.edu.cn
Organization name EPFL
Street address EPFL SV IBI-SV LISP AI 1145
City Lausanne
ZIP/Postal code 1015
Country Switzerland
 
Platform ID GPL25145
Series (2)
GSE131616 The transcriptional coactivator CBP/p300 is an evolutionarily conserved node that promotes longevity in response to mitochondrial stress
GSE148328 The transcriptional coactivator CBP/p300 is an evolutionarily conserved node that promotes longevity in response to mitochondrial stress [ChIP-seq]
Relations
BioSample SAMN14560237
SRA SRX8083110

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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