GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM774968 Query DataSets for GSM774968
Status Public on Sep 02, 2011
Title ES Timepoint, TAF3 Control, PE, replicate 1
Sample type SRA
Source name Embryonic stem cells, TAF3 control
Organism Mus musculus
Characteristics strain: D3
cell type: embryonic stem cells
genotype: TAF3 WT
timepoint: ES
Treatment protocol Samples were infected with lentiviral vectors expressing either anti-TAF3 (KO) or non-target (Control) shRNA constructs. ES samples were harvested after 72 hours, while EB samples were stimulated to differentiate (by withdrawl of LIF) and sampled either 3 or 6 days later.
Growth protocol ES cells were cultured on 0.1% gelatin-coated plates in the absence of feeder cells. The ES cell medium was prepared by supplementing knockout DMEM (Invitrogen) with 15% FBS, 1mM glutamax, 0.1mM nonessential amino acids, 1mM sodium pyruvate, 0.1mM 2-mercapodhanol and 1000 units of LIF (Millipore).
Extracted molecule total RNA
Extraction protocol As per vendor protocol. Paired-end (PE) library insert (all) mean=240bp, sd=30bp.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer IIx
Description polyA RNA
Paired-end reads.
Data processing Sequence reads were mapped to mm9 using TopHat v1.1.1 with default parameters.
Submission date Aug 08, 2011
Last update date May 15, 2019
Contact name Devin Scannell
Phone 001-510-666-3640
Organization name UC Berkeley
Department QB3
Lab Eisen
Street address 378 Stanley Hall #3220
City Berkeley
State/province CA
ZIP/Postal code 94720
Country USA
Platform ID GPL11002
Series (2)
GSE30959 Control of Embryonic Stem Cell Lineage Commitment by Core Promoter Factor, TAF3
GSE31271 Control of Embryonic Stem Cell Lineage Commitment by Core Promoter Factor, TAF3 (RNA-Seq data)
SRA SRX091889
BioSample SAMN00709429
Named Annotation GSM774968_100513_GA1_5_pe-1.bigwig

Supplementary file Size Download File type/resource
GSM774968_100513_GA1_5_pe-1.bigwig 80.3 Mb (ftp)(http) BIGWIG
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap