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Sample GSM86556 Query DataSets for GSM86556
Status Public on Dec 09, 2005
Title PG13 MP2, chip MG_U74Bv2
Sample type RNA
 
Source name PG13 cell line, Fibroblast
Organism Mus musculus
Characteristics Defining markers: GFP
Treatment protocol Assays to confirm viability: 7AAD staining
Growth protocol Growth medium: IMDM
Extracted molecule total RNA
Extraction protocol RNA prep method: RNeasy
Cell purification method: Cell sorting
Method for estimating purity: Reanalysis of sorted population by FACS-Vantage
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. Mickie Bhatia (mbhatia@robarts.ca; Box 5015; 100 Perth Drive) for analysis.
Stembase Experiment ID: E37
Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=37
SCGP Sample ID: S56
SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=37#SAMPLE_42
Short description: Total RNA from PG13 transduced with retroviral vector (MIEV) alone.
Estimated purity: ~ 98%
RNA concentration: 2.0 ug/ul
Num cells for RNA prep: 4x10e6
Sample volume: 9.0 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)
GSE3771 Role of Smad7 in Hematopoietic (M-O7e) and Non-Hematopoietic (PG13) Stem 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-MurIL2_at 148.097 A 0.824672
AFFX-MurIL10_at 563.525 A 0.440646
AFFX-MurIL4_at 37.1595 A 0.834139
AFFX-MurFAS_at 442.443 A 0.123572
AFFX-BioB-5_at 3806.78 P 0.00141043
AFFX-BioB-M_at 8843.46 P 5.16732e-05
AFFX-BioB-3_at 4516.65 P 9.4506e-05
AFFX-BioC-5_at 12861.1 P 0.000169227
AFFX-BioC-3_at 9401.38 P 4.42873e-05
AFFX-BioDn-5_at 13170.4 P 7.00668e-05
AFFX-BioDn-3_at 73573.2 P 8.14279e-05
AFFX-CreX-5_at 130108 P 4.42873e-05
AFFX-CreX-3_at 181355 P 4.42873e-05
AFFX-BioB-5_st 133.373 A 0.617401
AFFX-BioB-M_st 674.557 A 0.51489
AFFX-BioB-3_st 324.29 A 0.772364
AFFX-BioC-5_st 209.542 A 0.834139
AFFX-BioC-3_st 46.0954 A 0.852061
AFFX-BioDn-5_st 1244.83 A 0.165861
AFFX-BioDn-3_st 3107.39 P 0.0239288

Total number of rows: 12477

Table truncated, full table size 363 Kbytes.




Supplementary file Size Download File type/resource
GSM86556.CEL.gz 2.7 Mb (ftp)(http) CEL
GSM86556.EXP.gz 516 b (ftp)(http) EXP

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