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Status
Public on Dec 09, 2005
Title
Untransformed (control 3), chip MG_U74Cv2
Sample type
RNA
Source name
Primary marrow stromal cells, Bone marrow
Organism
Mus musculus
Characteristics
Strain: C57Bl/6 Gender: Female Defining markers: CD31-, CD34 low/-, CD45-
Treatment protocol
Assays to confirm viability: RNA samples run on gel
Growth protocol
Growth medium: DMEM Media supplements: 10% fetal bovine serum, 50 U/ml penicillin, 50 ug/ml streptomycin
Extracted molecule
total RNA
Extraction protocol
RNA prep method: RNeasy Cell purification method: Mixed population of 100% marrow stromal cells arising after more than two months in culture and 10-15 passages Method for estimating purity: Cell culture and flow cytometry analysis
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. Jacques Galipeau (jgalipea@lab.jgh.mcgill.ca; Sir Mortimer B. Davis-Jewish General Hospital; 3755 Cote Ste-Catherine Road) for analysis. Stembase Experiment ID: E17 Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=17 SCGP Sample ID: S19 SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=17#SAMPLE_17 Short description: Untransformed marrow stromal cells from normal C57Bl/6 mice. Estimated purity: 100% RNA concentration: 190-274 ug/ul Num cells for RNA prep: 4-8x10e6 Sample volume: 40 ul
Data processing
Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06
Submission date
Dec 07, 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
GPL83
Series (1)
GSE3767
Expression Profile of Untransformed Bone Marrow Stromal Cells from Wild-Type C57Bl/6 Mice.
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-MurIL2_at
3.2492
A
0.645547
AFFX-MurIL10_at
5.56889
A
0.686277
AFFX-MurIL4_at
1.58138
A
0.5
AFFX-MurFAS_at
7.90692
A
0.239063
AFFX-BioB-5_at
171.926
P
0.000126798
AFFX-BioB-M_at
334.714
P
4.42873e-05
AFFX-BioB-3_at
263.526
P
4.42873e-05
AFFX-BioC-5_at
422.287
P
7.00668e-05
AFFX-BioC-3_at
342.166
P
5.16732e-05
AFFX-BioDn-5_at
453.785
P
4.42873e-05
AFFX-BioDn-3_at
2350.56
P
4.42873e-05
AFFX-CreX-5_at
4658.06
P
4.42873e-05
AFFX-CreX-3_at
5945.1
P
4.42873e-05
AFFX-BioB-5_st
9.83964
A
0.262827
AFFX-BioB-M_st
16.0874
A
0.102165
AFFX-BioB-3_st
14.3707
A
0.227636
AFFX-BioC-5_st
1.79389
A
0.904333
AFFX-BioC-3_st
1.1722
A
0.749204
AFFX-BioDn-5_st
37.0364
P
0.036569
AFFX-BioDn-3_st
37.855
P
0.0012475
Total number of rows: 11934 Table truncated, full table size 348 Kbytes .Supplementary file
Size
Download
File type/resource
GSM86497.CEL.gz
2.5 Mb
(ftp) (http)
CEL
GSM86497.EXP.gz
510 b
(ftp) (http)
EXP