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Sample GSM5288886 Query DataSets for GSM5288886
Status Public on Jan 21, 2022
Title lacZ_R2_ChIRPseq
Sample type SRA
 
Source name Murine myoblasts C2C12
Organism Mus musculus
Characteristics cell line: C2C12
genotype/variation: Wild-type
tissue: Myotubes
treatment: lacZ
Growth protocol C2C12 PAX7 NEG cells were maintained in HyClone Dulbecco’s High Glucose Modified Eagles Medium (GE #SH30081.01) with 20% FBS. For differentiation to myotubes serum was exchanged to 2%HS.
Extracted molecule genomic DNA
Extraction protocol Cells were grown to ~80% confluency for GM or differentiated for 3 days for DM3 and washed briefly twice with ice-cold PBS. Chromatin Isolation by RNA Purification (ChIRP) procedure was performed as described (Chu et al., 2012) using biotinylated antisense probes complementary to MUNC genomic sequence.
Sequencin was performed by Genome Analysis and Technology Core at University of Virginia School of Medicine using the Illumina MiSeq instrument.
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina MiSeq
 
Data processing Library strategy: ChIRP-seq
bowtie2 version 2.3.4.1
MACS2 version 2.1.1.20160309
GREAT
Genome_build: mm10
Supplementary_files_format_and_content: .txt: table with chromosomal coordinates for MUNC peaks
 
Submission date May 10, 2021
Last update date Jan 21, 2022
Contact name Roza Kamila Przanowska
Organization name University of Virginia
Department Biomedical Engineering
Street address 1340 JPA
City Charlottesville
State/province Virginia
ZIP/Postal code 22908
Country USA
 
Platform ID GPL16417
Series (2)
GSE174195 Distinct MUNC lncRNA structural domains regulate transcription of different promyogenic factors [ChIRP-seq]
GSE174218 Distinct MUNC lncRNA structural domains regulate transcription of different promyogenic factors
Relations
BioSample SAMN19101832
SRA SRX10830891

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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