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| Status |
Public on Apr 04, 2019 |
| Title |
PRDE-1 ChIP-seq |
| Sample type |
SRA |
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| Source name |
Young adults
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| Organism |
Caenorhabditis elegans |
| Characteristics |
tissue: whole animal extract
developmental stage: Young adults
|
| Growth protocol |
20 C, in NGM plates.
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Animals were frozen in liquid nitogen and crushed in metallic grinder. Animal extracts were lysed in FA Buffer and sonicated in BIORUPTOR at 4C.
NEB-NEXT Ultra II DNA Prep
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| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 1500 |
| |
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| Data processing |
read trimming
mapping to genome with BWA
removal of blacklisted areas
MACS2 peak calling with a summed input, p value cutoff 0.01
preparation of normalized signal tracks with BEADs algorithm.
Genome_build: ce10
Supplementary_files_format_and_content: bw, narrowpeak
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| Submission date |
Apr 04, 2018 |
| Last update date |
Apr 04, 2019 |
| Contact name |
Eric Miska |
| E-mail(s) |
eam29@cam.ac.uk
|
| Organization name |
University of Cambridge
|
| Department |
The Gurdon Institute
|
| Lab |
Eric Miska Lab
|
| Street address |
tennis court road
|
| City |
cambridge |
| ZIP/Postal code |
CB2 1QN |
| Country |
United Kingdom |
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| Platform ID |
GPL18730 |
| Series (1) |
| GSE112682 |
Functional proteomics identified an upstream trancription complex promoting piRNA biogenesis |
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| Relations |
| BioSample |
SAMN08863777 |
| SRA |
SRX3883435 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM3080181_PRDE1_processed_data.tar.gz |
646.6 Mb |
(ftp)(http) |
TAR |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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