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Sample GSM64985 Query DataSets for GSM64985
Status Public on Jul 22, 2005
Title R1 EB 14d 2, 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 6541.33 P 0.00255552
AFFX-BioB-M_at 9742.7 P 0.000258358
AFFX-BioB-3_at 6419.41 P 0.00110197
AFFX-BioC-5_at 16887.4 P 9.4506e-05
AFFX-BioC-3_at 12488.4 P 6.02111e-05
AFFX-BioDn-5_at 13342.2 P 8.14279e-05
AFFX-BioDn-3_at 113826 P 0.000146581
AFFX-CreX-5_at 192249 P 4.42873e-05
AFFX-CreX-3_at 275067 P 4.42873e-05
AFFX-DapX-5_at 61465.9 P 4.42873e-05
AFFX-DapX-M_at 134214 P 5.16732e-05
AFFX-DapX-3_at 233543 P 4.42873e-05
AFFX-LysX-5_at 15762.2 P 4.42873e-05
AFFX-LysX-M_at 30919.5 P 4.42873e-05
AFFX-LysX-3_at 62172.6 P 4.42873e-05
AFFX-PheX-5_at 4700.85 P 0.000126798
AFFX-PheX-M_at 7608.41 P 0.000509415
AFFX-PheX-3_at 14374.5 P 9.4506e-05
AFFX-ThrX-5_at 1511.86 M 0.0542134
AFFX-ThrX-M_at 3322.9 P 0.0200219

Total number of rows: 22575

Table truncated, full table size 666 Kbytes.




Supplementary file Size Download File type/resource
GSM64985.CEL.gz 3.3 Mb (ftp)(http) CEL
GSM64985.EXP.gz 496 b (ftp)(http) EXP

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