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Sample GSM7025306 Query DataSets for GSM7025306
Status Public on Feb 03, 2024
Title 1143
Sample type SRA
 
Source name anterior mouse forelimb
Organism Mus musculus
Characteristics tissue: anterior mouse forelimb
genotype: Gli3Xt-J ; Gli3+/+
cell type: Anterior forelimb pair (~2-400K cells)
Stage: E11.5 (43s)
Extracted molecule genomic DNA
Extraction protocol 2-400K cells from anterior, posterior or whole forelimbs from wild-type embryos incubated with anti-SMARCC1 or anti-Rabbit IGG antibody overnight at 4degC, and then treated with p-AG-Mnase (Epicypher) for 2H at 4degC. Samples were library prepped and run on a BioAnalyzer to assess quality prior to sequencing.
Libraries prepared using the NEBNext Ultra II DNA library prep kit (New England Biolabs E7645S), PCR amplified for 14 cycles and cleaned up using SparQ PureMag beads (QuantaBio 95196-060) at a ratio of 0.8x beads.
NEBNext Ultra II DNA library prep kit (New England Biolabs E7645S)
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina NovaSeq 6000
 
Description 2-400K cells from anterior forelimbs from wild-type embryos incubated with anti-SMARCC1 antibody overnight at 4degC, and then treated with p-AG-Mnase (Epicypher) for 2H at 4degC.
Data processing Base calling was done using Illumina bcl2fastq version 2.20.0
Raw sequencing reads are mapped to mouse mm10 genome using Bowtie2 (version 2.3.5).
Peak calling was done using MACS2
 
Submission date Feb 03, 2023
Last update date Feb 03, 2024
Contact name Steven A. Vokes
E-mail(s) svokes@austin.utexas.edu
Organization name University of Texas at Austin
Department Molecular Biosciences
Street address 2500 Speedway, STOP A5000
City Austin
State/province Texas
ZIP/Postal code 78757
Country USA
 
Platform ID GPL24247
Series (2)
GSE224508 The BAF complex does not mediate GLI repression (Gli3 null Cut&RUN)
GSE224510 The BAF complex does not mediate GLI repression
Relations
BioSample SAMN33059266
SRA SRX19278078

Supplementary file Size Download File type/resource
GSM7025306_1143.bw 77.4 Mb (ftp)(http) BW
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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