Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Embryo
Cell type
Embryonic limb
NA
NA

Attributes by original data submitter

Sample

source_name
limb buds
strain
C57BL/6
developmental stage
e12.5
tissue
limb buds
antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
After disruption with a Dounce homogenizer lysates were sonicated and the DNA sheared to an average length of 300-500 bp. Chromatin (30 ug) was precleared with protein A agarose beads. Incubated with 20 ul antibody against Lmx1b (BMO8)53 kindly provided Dr. Witzgall.. Crosslink was reversed Proteinase K digestion and incubation overnight at 65 °C. ChIP DNA was purified by phenol-chloroform extraction and ethanol precipitation. After end-polishing, dA-addition, adaptor ligation and final PCR amplification step, the resulting DNA libraries were quantified and sequenced on Illumina’s NextSeq 500.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
48931421
Reads aligned (%)
94.3
Duplicates removed (%)
13.7
Number of peaks
716 (qval < 1E-05)

mm9

Number of total reads
48931421
Reads aligned (%)
94.1
Duplicates removed (%)
13.6
Number of peaks
761 (qval < 1E-05)

Base call quality data from DBCLS SRA