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Sample GSM64958 Query DataSets for GSM64958
Status Public on Jul 22, 2005
Title R1 EB 48h 1, chip MOE430A
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: S212
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=165#SAMPLE_171
Short description: 48 hours 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 Apr 01, 2011
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 GPL339
Series (1)
GSE2972 R1 Embryonic Stem Cell and Embryoid Body Time Course
Relations
Reanalyzed by GSE26498

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 2065.2 P 0.0012475
AFFX-BioB-M_at 3438.82 P 0.000146581
AFFX-BioB-3_at 1876.18 P 0.000340305
AFFX-BioC-5_at 4915.22 P 9.4506e-05
AFFX-BioC-3_at 3614.61 P 4.42873e-05
AFFX-BioDn-5_at 3277.42 P 5.16732e-05
AFFX-BioDn-3_at 28420.8 P 0.000146581
AFFX-CreX-5_at 48481.9 P 4.42873e-05
AFFX-CreX-3_at 82487.6 P 4.42873e-05
AFFX-DapX-5_at 28285.7 P 4.42873e-05
AFFX-DapX-M_at 61361.3 P 5.16732e-05
AFFX-DapX-3_at 79133.6 P 4.42873e-05
AFFX-LysX-5_at 9046.81 P 4.42873e-05
AFFX-LysX-M_at 16760.8 P 4.42873e-05
AFFX-LysX-3_at 27191.8 P 4.42873e-05
AFFX-PheX-5_at 3604.95 P 5.16732e-05
AFFX-PheX-M_at 3278.96 P 4.42873e-05
AFFX-PheX-3_at 5774.44 P 5.16732e-05
AFFX-ThrX-5_at 1114.5 P 0.000856509
AFFX-ThrX-M_at 1777.35 P 0.000169227

Total number of rows: 22690

Table truncated, full table size 695 Kbytes.




Supplementary file Size Download File type/resource
GSM64958.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM64958.EXP.gz 490 b (ftp)(http) EXP

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