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Sample GSM1958898 Query DataSets for GSM1958898
Status Public on Aug 10, 2016
Title GFP RNA-Seq
Sample type SRA
Source name K27ac CHiP for wild-type GFP sample
Organism Mus musculus
Characteristics strain: C57Bl/6
cell type: Chondrocytes
genotype/variation: wild-type
transduction: GFP control adenovirus
Treatment protocol NA
Growth protocol NA
Extracted molecule total RNA
Extraction protocol Total RNA was isolated micromass cultures with TRIzol reagent (Invitrogen), followed by phenol/chloroform extraction
Libraries were prepared according to Illumina TruSeq v2 mRNA
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Description GFP control adenovirus
Data processing bcl2fastq v1.8.4 is used for basecalling
Paired-end reads are aligned by TopHat 2.0.6
Data was analyzed using Mayo Clinic's RNA-seq piepline : MAP-Rseq (
Gene counts are generated using HTseq software
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include Gene count values and rLogFC for each Sample
Submission date Dec 01, 2015
Last update date May 15, 2019
Contact name Jennifer Jane Westendorf
Organization name Mayo Clinic
Street address 200 First Street SW
City Rochester
State/province MN
ZIP/Postal code 55905
Country USA
Platform ID GPL13112
Series (2)
GSE75549 Determine the effects of Hdac3 deletion on H3K27ac profiles in murine chondrocytes[RNA-Seq]
GSE75552 Determine the effects of Hdac3 deletion on H3K27ac profiles in murine chondrocytes
BioSample SAMN04304509
SRA SRX1457516

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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