Curated Sample Data


Genome
dm3
Antigen Class
TFs and others
Antigen
ph-d
Cell type Class
Larvae
Cell type
CNS and imaginal discs

Cell type information


NA
NA

Attributes by Original Data Submitter


source_name
3rd instar brains and imaginal disks, Ph ChIP
strain/background
ry
developmental stage
3rd instar larvae
tissue
CNS and imaginal disks
chip antibody
anti-Ph

Metadata from Sequence Read Archive

Library Description


library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Fixed brains and imaginal discs were dissected from 10 third instar larvae. Sonicated chromatin incubated with anti ChIP was performed with 1:100 dilutions of anti-Pho (custom made) and anti-Ph antibodies (a kind gift from Donna Arndt-Jovin), 1:200 dilutions of anti-H3K27me3 (Millipore, 17-622) antibodies, and anti-Engrailed antibodies. Input ChIP DNA (30 ng) was blunt-ended and phosphorylated. A single 'A' nucleotide was added to the 3' ends of the fragments in preparation for ligation to an adapter that has a single-base 'T' overhang. The ligation products were purified and accurately size-selected by agarose gel electrophoresis. Size-selected DNA was purified and PCR-amplified to enrich for fragments that have adapters on both ends. The final purified product was then quantitated before cluster generation.

Platform Information


instrument_model
Illumina HiSeq 2500

External Database Query

Logs in read processing pipeline


Number of total reads
955550
Reads aligned (%)
90.9
Duplicates removed (%)
12.3
Number of peaks
3004 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA