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Sample GSM64965 Query DataSets for GSM64965
Status Public on Jul 22, 2005
Title R1 EB 4d 1, chip MOE430B
Sample type RNA
 
Source name R1, Fetal cells
Organism Mus musculus
Characteristics Strain: 129/Sv x 129/Sv-CP
Gender: Male
Biomaterial provider Contact details for sample vendor: R1 sample obtained from Andras Nagy's lab
Growth protocol Growth medium: ES Cell Medium - DMEM (high glucose)
Media supplements: Hyclone FCS (heat inactivated), non-essential amino acids, Glutamax, Penicillin/Streptomycin, sodium pyruvate, beta-mercaptoethanol
Culture conditions: 37 C, 5% CO2
Extracted molecule total RNA
Extraction protocol RNA prep method: RNeasy
Cell purification method: Culturing
Contaminating cell type: none
Label Biotin
 
Description This sample was analyzed as part of the Stem Cell Genomics Project (http://www.scgp.ca:8080/StemBase/). The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Michael Rudnicki (mrudnicki@ohri.ca; 501 Smyth Road) for analysis.
Stembase Experiment ID: E165
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=165
SCGP Sample ID: S213
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=165#SAMPLE_172
Short description: 4 days of an 11-point time course study of R1 embryonic stem cells and their cognate differentiated embryoid bodies. All samples investigated in triplicate. The cells are differentiating embryonic bodies from murine embryonic stem cells.
Estimated purity: 100%
RNA concentration: 2.0 ug/uL
Num cells for RNA prep: Unable to break up embryoid bodies to do a cell count.
Sample volume: 15.0 uL
Data processing Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06
 
Submission date Jul 21, 2005
Last update date Jan 19, 2006
Organization Ottawa Hospital Research Institute
Phone (613) 737-8899 -73255
Department Cellular and Molecular Medicine
Lab Ottawa Bioinformatics Core Facility
Street address 501 Smyth Rd.
City Ottawa
State/province ON
ZIP/Postal code K1H 8L6
Country Canada
 
Platform ID GPL340
Series (1)
GSE2972 R1 Embryonic Stem Cell and Embryoid Body Time Course

Data table header descriptions
ID_REF
VALUE 'signal' a measure of the abundance of a transcript. Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06.
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 8703.73 P 0.00179591
AFFX-BioB-M_at 11213.1 P 0.000195116
AFFX-BioB-3_at 7028.24 P 0.00255552
AFFX-BioC-5_at 18753 P 0.000146581
AFFX-BioC-3_at 11892.3 P 6.02111e-05
AFFX-BioDn-5_at 9437.04 P 0.000389797
AFFX-BioDn-3_at 103375 P 0.000126798
AFFX-CreX-5_at 165712 P 4.42873e-05
AFFX-CreX-3_at 259351 P 4.42873e-05
AFFX-DapX-5_at 64213.9 P 4.42873e-05
AFFX-DapX-M_at 167280 P 5.16732e-05
AFFX-DapX-3_at 245007 P 4.42873e-05
AFFX-LysX-5_at 16785.1 P 4.42873e-05
AFFX-LysX-M_at 35478.1 P 4.42873e-05
AFFX-LysX-3_at 74670.9 P 5.16732e-05
AFFX-PheX-5_at 6345.09 P 0.000146581
AFFX-PheX-M_at 8548.59 P 0.000389797
AFFX-PheX-3_at 16343.3 P 8.14279e-05
AFFX-ThrX-5_at 3440.72 A 0.0676785
AFFX-ThrX-M_at 3459.75 P 0.0239288

Total number of rows: 22575

Table truncated, full table size 663 Kbytes.




Supplementary file Size Download File type/resource
GSM64965.CEL.gz 3.2 Mb (ftp)(http) CEL
GSM64965.EXP.gz 507 b (ftp)(http) EXP

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