Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Adult
Cell type
Whole worm
NA
NA

Attributes by original data submitter

Sample

source_name
whole animal,mixed population
strain
SX2966
antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
After fixation with formaldehyde, C elegans lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were prepared according to a modifed Illumina protocol (Ethan Ford's protocol). Briefly, DNA was end-repaired using the NEB ENd repair enzyme Mix. The blunt, phosphorylated ends were treated with Klenow fragment (exo minus, NEB) and dATP to yield a protruding 3- 'A' base for ligation of Illumina's adapters which have a single 'T' base overhang at the 3’ end. After adapter ligation DNA was PCR amplified with Illumina primers and library fragments of ~250 bp (insert plus adaptor and PCR primer sequences) were size selected with AMPure XP beads.

Sequencing Platform

instrument_model
Illumina HiSeq 1500

ce11

Number of total reads
32757977
Reads aligned (%)
99.0
Duplicates removed (%)
22.0
Number of peaks
0 (qval < 1E-05)

ce10

Number of total reads
32757977
Reads aligned (%)
99.0
Duplicates removed (%)
22.0
Number of peaks
0 (qval < 1E-05)

Base call quality data from DBCLS SRA