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Sample GSM263703 Query DataSets for GSM263703
Status Public on Mar 01, 2008
Title MyoD, wtp16, 18hr, chip MG_U74Cv2
Sample type RNA
 
Source name Primary Myoblasts, Skeletal Muscle
Organism Mus musculus
Characteristics Strain: Balb/c MyoD wild Type
Gender: Male
Growth protocol Growth medium: Ham's F10 Nutrient Mixture
Media supplements: 20% FBS,, bFGF 250 ng/ml, 4% Penicillin (5x10E3 U/ml)-Streptomycin (5x10E3 ug/ml), 1% L-Glutamine 200 mM
Culture conditions: 37ºC, 5% CO2, 0.01% Collagen coated petri plate; Change with fresh media at day 3rd.
Extracted molecule total RNA
Extraction protocol RNA prep method: RNeasy (Qiagen)
Cell purification method: cultured
Contaminating cell type: none
Label Biotin
Label protocol Biotinylated cRNA was prepared from the total RNA according to the Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix)
 
Hybridization protocol Following fragmentation, cRNA was hybridized on the GeneChip Array and the GeneChips were washed and stained in the Affymetrix Fluidics Station 450 according to the standard Affymetrix protocol (Expression Analysis Technical Manual Rev. 2, 2005-2006, Affymetrix).
Scan protocol GeneChips were scanned using the Affymetrix GeneChip 3000 7G scanner.
Description This sample was analyzed as part of the Stem Cell Genomics Project (http://www.stembase.ca). 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: E233
Stembase Experiment ID link: http://www.stembase.ca/?path=/browse/experiment&id=233
SCGP Sample ID: S336
SCGP Sample ID link: http://www.stembase.ca/?path=/browse/experiment&id=233#SAMPLE_345
Short description: Time Course in vitro Differentiation of Myogenic Primary Myoblast into Myotubes for Ontario Genome Project 2004-05. , The Differentiation is leaded by removing the Proliferation Medium (Ham's F10 Medium + growth factors) and feeding with Differentiation Medium (DMEM hg + 2.5% Horse serum). , The expected data are: % Viability of cells; Total RNA extraction; BioAnalysis and MicroArray of Undifferentiated and Differentiated cells., Time point: 18 hr
Estimated purity: 100%
RNA concentration: 1593.0 ng/µL
Num cells for RNA prep: More than 2 x 10E+6 Balb/c
Sample volume: 27µL
Data processing Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpha2=0.06
 
Submission date Feb 07, 2008
Last update date Feb 29, 2008
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)
GSE10424 MyoD wt, Time Course

Data table header descriptions
ID_REF
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-MurIL2_at 340.953 A 0.937071
AFFX-MurIL10_at 332.895 A 0.916408
AFFX-MurIL4_at 1953.92 A 0.313723
AFFX-MurFAS_at 3124.82 P 0.0396608
AFFX-BioB-5_at 31732.1 P 9.4506e-05
AFFX-BioB-M_at 51360.8 P 4.42873e-05
AFFX-BioB-3_at 31277.5 P 4.42873e-05
AFFX-BioC-5_at 88344.6 P 5.16732e-05
AFFX-BioC-3_at 57703.2 P 5.16732e-05
AFFX-BioDn-5_at 105399 P 4.42873e-05
AFFX-BioDn-3_at 333060 P 4.42873e-05
AFFX-CreX-5_at 580248 P 4.42873e-05
AFFX-CreX-3_at 1.10204e+06 P 5.16732e-05
AFFX-BioB-5_st 1573.45 A 0.455413
AFFX-BioB-M_st 694.431 A 0.39692
AFFX-BioB-3_st 1737.1 A 0.300606
AFFX-BioC-5_st 178.818 A 0.994435
AFFX-BioC-3_st 279.161 A 0.58862
AFFX-BioDn-5_st 4490.4 A 0.0676785
AFFX-BioDn-3_st 6148.1 P 0.026111

Total number of rows: 11934

Table truncated, full table size 345 Kbytes.




Supplementary file Size Download File type/resource
GSM263703.CEL.gz 1.4 Mb (ftp)(http) CEL
GSM263703.CHP.gz 74.9 Kb (ftp)(http) CHP
GSM263703.EXP.gz 500 b (ftp)(http) EXP
Processed data included within Sample table
Processed data provided as supplementary file

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