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Sample GSM72617 Query DataSets for GSM72617
Status Public on Sep 01, 2005
Title J1-D1, chip MOE430B
Sample type RNA
 
Source name J1 ES Cells, embryonic
Organism Mus musculus
Characteristics Strain: 129/Sv
Gender: Male
Growth protocol Growth medium: D-MEM
Media supplements: 10% fetal bovine serum, glutamax, non-essential amino-acids, penicillin, streptomycin
Culture conditions: Bacterial Petri dishes at 37C, 5% CO2 for 5 days
Extracted molecule total RNA
Extraction protocol RNA prep method: RNeasy
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: E95
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=95
SCGP Sample ID: S127
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=95#SAMPLE_95
Short description: Total RNA was extracted from J1 embryoid bodies following 5 days of culture.
RNA concentration: 2 ug/ul
Num cells for RNA prep: 8-10x10E6
Sample volume: 20 ul
Data processing Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06
 
Submission date Aug 30, 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)
GSE3223 Comparison of Gene Expression Profiles of J1 ES and J1 EB Cells.

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 9381.02 P 0.002867
AFFX-BioB-M_at 12158.8 P 0.000126798
AFFX-BioB-3_at 5271.89 P 0.0239288
AFFX-BioC-5_at 16984.3 P 0.000169227
AFFX-BioC-3_at 14926.4 P 5.16732e-05
AFFX-BioDn-5_at 21137.7 P 4.42873e-05
AFFX-BioDn-3_at 130745 P 8.14279e-05
AFFX-CreX-5_at 251055 P 4.42873e-05
AFFX-CreX-3_at 343840 P 4.42873e-05
AFFX-DapX-5_at 88395.4 P 5.16732e-05
AFFX-DapX-M_at 172833 P 5.16732e-05
AFFX-DapX-3_at 231765 P 4.42873e-05
AFFX-LysX-5_at 23659.9 P 5.16732e-05
AFFX-LysX-M_at 28410.3 P 4.42873e-05
AFFX-LysX-3_at 62064.2 P 4.42873e-05
AFFX-PheX-5_at 8004.99 P 0.000340305
AFFX-PheX-M_at 8866.59 P 0.000340305
AFFX-PheX-3_at 10313.9 P 5.16732e-05
AFFX-ThrX-5_at 3301.82 P 0.00255552
AFFX-ThrX-M_at 4939.34 P 0.00618711

Total number of rows: 22575

Table truncated, full table size 665 Kbytes.




Supplementary file Size Download File type/resource
GSM72617.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM72617.EXP.gz 500 b (ftp)(http) EXP

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