Curated Sample Data


Genome
dm3
Antigen Class
Input control
Antigen
Input control
Cell type Class
Adult
Cell type
Intestines

Cell type information


NA
NA

Attributes by Original Data Submitter


source_name
adult intestines
strain background
W1118
fly genotypes
esgts>Upd and STAT92E
developmental stage
adult
cultural condition
29? for 10 days
tissue
intestines
chip antibody
none

Metadata from Sequence Read Archive

Library Description


library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
About 400 Drosophila adult midguts(with the hindgut and Malpighian excluded) were dissected in ice-cold PBS, and then cross-linked with 1% formaldehyde for 15 minutes. After washing process to remove the formaldehyde, intestinal tissue was lysed with RIPA buffer which contains 1% SDS on ice for 30 minutes. The sonication of chromatin was performed using the Covaris (AFA) system with 3% power output for 5 minutes each on 100μl lysates.STAT92E-bound chromatin fragments were enriched by immunoprecipitation with mouse raised STAT92E antibody. Most chromatin fragments resulting from sonication occurred between 200 and 400 bp.The process of dilution, antibody incubation, protein G pull down, beads washing, DNA complex elution, de-link, RNAse A / protease K digestion and DNA extraction all with normal ChIP protocols.The high throughput sequencing process was carried out using the Illumina solexa system. ChIP and input libraries were prepared using NEXTflex™ Illumina ChIP-Seq Library Prep Kit (Illumina) according to the manufacturer’s protocol. The indexed libraries were pooled together, and sequenced using the Illumina HiSeq 2000 (Illumina) instrument.

Platform Information


instrument_model
Illumina HiSeq 2000

External Database Query

Logs in read processing pipeline


Number of total reads
8486332
Reads aligned (%)
92.0
Duplicates removed (%)
55.8
Number of peaks
262 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA