Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SNAI1

Cell type

Cell type Class
Muscle
Cell type
RH-30
Primary Tissue
Skeletal Muscle
Tissue Diagnosis
Rhabdomyosarcoma

Attributes by original data submitter

Sample

source_name
RH30 rhabdomyosarcoma cells
antibody
SNAIL antibody
cell line
RH30

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP was performed using SimpleChip Enzymatic Chromatin IP Kit (Cell Signaling Technology) according to the manufacturer's protocol. For ChIP assays 10 µg of goat antibody against SNAIL (R&D Systems, cat. AB-108-C) was used. After immunoprecipitation, the DNA was isolated using spin columns from the kit. Input sample was also analyzed. Chip-Seq analysis was performed using the Intelliseq sp. z o. o. (Cracow, Poland) company service in cooperation with Novogene Co., Lt d using Illumina high-throughput sequencer. RNA libraries were prepared for sequencing using standard Illumina protocols. Paired-end sequencing libraries were sequenced by Illumina high-throughput sequencer by the Novogene company.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
22758533
Reads aligned (%)
165.4
Duplicates removed (%)
12.8
Number of peaks
316 (qval < 1E-05)

hg38

Number of total reads
22758533
Reads aligned (%)
167.5
Duplicates removed (%)
12.4
Number of peaks
504 (qval < 1E-05)

Base call quality data from DBCLS SRA