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Sample GSM86149 Query DataSets for GSM86149
Status Public on Dec 06, 2005
Title J1 EB 9d 1, chip MOE430B
Sample type RNA
 
Source name J1, Fetal cells
Organism Mus musculus
Characteristics Strain: 129/Sv
Gender: Male
Treatment protocol Assays to confirm viability: Stratagene mycoplasma PCR test
Growth protocol Growth medium: ES Cell Medium - DMEM (high glucose)
Media supplements: Hyclone FCS, 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
Method for estimating purity: By eye
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: E201
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=201
SCGP Sample ID: S248
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=201#SAMPLE_215
Short description: 9 days of an 11-point time course study on differentiating embryoid bodies from a murine J1 embryonic stem cell line. The time course includes 0 hr, 6 hr, 12 hr, 18 hr, 24 hr, 36 hr, 48 hr, 4 days, 7 days, 9 days and 14 days.
Estimated purity: 100%
RNA concentration: 2.0 ug/uL
Num cells for RNA prep: Undetermined
Sample volume: 15 uL
Data processing Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06
 
Submission date Dec 05, 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)
GSE3749 11-Point Time Course Study of Differentiating J1 Embryoid Bodies

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 13828 P 0.000389797
AFFX-BioB-M_at 27068 P 0.000146581
AFFX-BioB-3_at 14830.4 P 0.000146581
AFFX-BioC-5_at 35815 P 7.00668e-05
AFFX-BioC-3_at 28825.7 P 8.14279e-05
AFFX-BioDn-5_at 32221.5 P 5.16732e-05
AFFX-BioDn-3_at 202417 P 6.02111e-05
AFFX-CreX-5_at 367862 P 4.42873e-05
AFFX-CreX-3_at 566863 P 4.42873e-05
AFFX-DapX-5_at 53197.7 P 4.42873e-05
AFFX-DapX-M_at 166184 P 5.16732e-05
AFFX-DapX-3_at 290073 P 4.42873e-05
AFFX-LysX-5_at 17373.4 P 4.42873e-05
AFFX-LysX-M_at 34959.5 P 4.42873e-05
AFFX-LysX-3_at 73197 P 4.42873e-05
AFFX-PheX-5_at 6206.84 P 0.000169227
AFFX-PheX-M_at 9236.39 P 0.00110197
AFFX-PheX-3_at 16919.3 P 0.00010954
AFFX-ThrX-5_at 2424.66 P 0.0309764
AFFX-ThrX-M_at 3707.63 P 0.0396608

Total number of rows: 22575

Table truncated, full table size 664 Kbytes.




Supplementary file Size Download File type/resource
GSM86149.CEL.gz 3.2 Mb (ftp)(http) CEL
GSM86149.EXP.gz 495 b (ftp)(http) EXP

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