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Sample GSM86493 Query DataSets for GSM86493
Status Public on Dec 09, 2005
Title Untransformed (control 2), chip MG_U74Bv2
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 GPL82
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 1.06167 A 0.949771
AFFX-MurIL10_at 2.75107 A 0.712257
AFFX-MurIL4_at 0.602038 A 0.883887
AFFX-MurFAS_at 6.64483 A 0.275146
AFFX-BioB-5_at 141.286 P 0.000581214
AFFX-BioB-M_at 339.252 P 4.42873e-05
AFFX-BioB-3_at 224.102 P 4.42873e-05
AFFX-BioC-5_at 421.58 P 4.42873e-05
AFFX-BioC-3_at 345.742 P 4.42873e-05
AFFX-BioDn-5_at 397.89 P 5.16732e-05
AFFX-BioDn-3_at 1831.58 P 5.16732e-05
AFFX-CreX-5_at 3933.73 P 4.42873e-05
AFFX-CreX-3_at 5001.45 P 4.42873e-05
AFFX-BioB-5_st 13.7805 A 0.139482
AFFX-BioB-M_st 6.65748 A 0.574038
AFFX-BioB-3_st 7.86492 A 0.631562
AFFX-BioC-5_st 4.45537 A 0.686277
AFFX-BioC-3_st 9.202 A 0.239044
AFFX-BioDn-5_st 27.7686 M 0.0584438
AFFX-BioDn-3_st 50.6155 P 0.0103167

Total number of rows: 12477

Table truncated, full table size 358 Kbytes.




Supplementary file Size Download File type/resource
GSM86493.CEL.gz 2.5 Mb (ftp)(http) CEL
GSM86493.EXP.gz 511 b (ftp)(http) EXP

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