|
Status |
Public on Mar 18, 2021 |
Title |
Ctrl-PolII-S5 |
Sample type |
SRA |
|
|
Source name |
Satellite cells/Myoblasts
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 chip antibody: PolII-S5 (Abcam Cat.No.ab5131) cell type: Satellite cells
|
Treatment protocol |
Satellite cells were treated with 4-OHT for 72 hrs for CreERT2 activation. Before proceeding for experiment cells were cultured in 4-OHT free media for 24 hrs
|
Growth protocol |
Satellite cells isolated from mice muscle tissue were cultured in F10 media with 20% BGS and bFGF (2.5 ng/ml)
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Cells were fixed with 1% formaldehyde for 20 min and quenched for 10 min in 125 mM glycine. Cells were sonicated in 1% SDS containing sonication buffer for extracting sonicated chromatin Library was constructed using KAPA HyperPrep Kit (Roche 07962363001-KAPA KK8504 ). End Repair/A-tailing step then ligation of IDT for Illumina TruSeq UD Indexes (Illumina-20022370) followed by dual SPRI size selection Left 1.0 - 0.52 Right and 11 cycles of PCR enrichment.
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina HiSeq 4000 |
|
|
Data processing |
Mapping: Satellite cells/Myoblasts PeakCalling: Uniquely mapped reads were used for peak calling using MACS2 Visualization: Mapped reads were converted to bigWigs with RPKM normalization Peak calls were converted to bigBed files Genome_build: MM10 Supplementary_files_format_and_content: narrowPeak [peak information, location]
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|
|
Submission date |
May 11, 2020 |
Last update date |
Dec 02, 2023 |
Contact name |
Jeffrey Dilworth |
E-mail(s) |
fdilworth@wisc.edu
|
Phone |
6082653758
|
Organization name |
University of Wisconsin
|
Street address |
1111 Highland Ave
|
City |
Madison |
State/province |
Wisconsin |
ZIP/Postal code |
53705 |
Country |
USA |
|
|
Platform ID |
GPL21103 |
Series (2) |
GSE150276 |
Negative Elongation Factor (NELF) regulates muscle progenitor expansion for efficient myofiber repair and stem cell pool repopulation {ChIP-seq] |
GSE150280 |
Negative Elongation Factor (NELF) regulates muscle progenitor expansion for efficient myofiber repair and stem cell pool repopulation |
|
Relations |
BioSample |
SAMN14887057 |
SRA |
SRX8321720 |