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Sample GSM64983 Query DataSets for GSM64983
Status Public on Jul 22, 2005
Title R1 EB 14d 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: S217
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=165#SAMPLE_175
Short description: 14 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 16074.8 P 0.000445901
AFFX-BioB-M_at 24702.9 P 4.42873e-05
AFFX-BioB-3_at 11375.8 P 0.000126798
AFFX-BioC-5_at 34564.3 P 7.00668e-05
AFFX-BioC-3_at 26201.1 P 4.42873e-05
AFFX-BioDn-5_at 32472.6 P 5.16732e-05
AFFX-BioDn-3_at 191090 P 7.00668e-05
AFFX-CreX-5_at 372361 P 4.42873e-05
AFFX-CreX-3_at 494877 P 4.42873e-05
AFFX-DapX-5_at 89054.9 P 4.42873e-05
AFFX-DapX-M_at 202926 P 5.16732e-05
AFFX-DapX-3_at 292737 P 4.42873e-05
AFFX-LysX-5_at 21695.9 P 4.42873e-05
AFFX-LysX-M_at 39570.3 P 4.42873e-05
AFFX-LysX-3_at 83881.1 P 4.42873e-05
AFFX-PheX-5_at 7662.49 P 0.000169227
AFFX-PheX-M_at 10123.9 P 0.000195116
AFFX-PheX-3_at 14714.5 P 8.14279e-05
AFFX-ThrX-5_at 2285.47 P 0.0113844
AFFX-ThrX-M_at 4416.85 P 0.0151826

Total number of rows: 22575

Table truncated, full table size 664 Kbytes.




Supplementary file Size Download File type/resource
GSM64983.CEL.gz 3.2 Mb (ftp)(http) CEL
GSM64983.EXP.gz 396 b (ftp)(http) EXP

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