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Sample GSM2795645 Query DataSets for GSM2795645
Status Public on Nov 02, 2018
Title VEC_A_3 MPRA_control
Sample type SRA
Source name C2C12
Organism synthetic construct
Characteristics lncrna previous name: NA
background: NA
official strain name: NA
genotype: NA
Sex: NA
sample type: Vector DNA
Extracted molecule genomic DNA
Extraction protocol Embryonic organs were harvested and homogenized in TRIzol. Cells were cultured and harvested directly in TRIzol.
Standard illumina protocols were used to make libraries (TruSeq RNA Sample Preparation Kit v2)
RNA-seq or plasmid-sequencing (For MPRA Vector DNA libraries)
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina HiSeq 2500
Data processing Custom python scripts were used to count barcodes in MPRA experiments.
In RNA seq experiments, reads were aligned to mm10 and quantified using rsem. For mESC samples, reads were first trimmed to 50bp.
Differential analysis was performed using DESeq
Genome_build: mm10
Supplementary_files_format_and_content: counts
Submission date Sep 27, 2017
Last update date May 15, 2019
Contact name Abbie Groff
Organization name Harvard University
Department Stem Cell and Regenerative Biology;
Lab John Rinn
Street address 7 Divinity Ave
City Cambridge
State/province MA
ZIP/Postal code 02139
Country USA
Platform ID GPL19604
Series (1)
GSE104341 The Peril DNA locus acts as an in vivo enhancer for distal but not proximal genes
BioSample SAMN07710802
SRA SRX3222753

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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