NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM776553 Query DataSets for GSM776553
Status Public on Aug 10, 2011
Title Control vs. Mybbp1a Knockdown C2C12 Cell Replicate 1
Sample type RNA
 
Channel 1
Source name Mybbp1a Knockdown C2C12 Stable Clones
Organism Mus musculus
Characteristics cell line: C2C12
developmental stage: adult
tissue: leg muscle
strain: C3H
Growth protocol Mouse C2C12 myoblast cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM, Invitrogen) supplemented with 20% heat-inactivated fetal bovine serum (FBS, Invitrogen) and 100 U/ml penicillin and streptomycin solution (Invitrogen) (GM), at subconfluent densities.
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions
Label Cy5
Label protocol 0.5 µg of total RNA were labeled using the Agilent Quick Amp Labeling Kit, with Cy3-CTP or Cy5-CTP as the label.
 
Channel 2
Source name Control Knockdown C2C12 Stable Clones
Organism Mus musculus
Characteristics cell line: C2C12
developmental stage: adult
tissue: leg muscle
strain: C3H
Growth protocol Mouse C2C12 myoblast cells were cultured in Dulbecco’s modified Eagle’s medium (DMEM, Invitrogen) supplemented with 20% heat-inactivated fetal bovine serum (FBS, Invitrogen) and 100 U/ml penicillin and streptomycin solution (Invitrogen) (GM), at subconfluent densities.
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions
Label Cy3
Label protocol 0.5 µg of total RNA were labeled using the Agilent Quick Amp Labeling Kit, with Cy3-CTP or Cy5-CTP as the label.
 
 
Hybridization protocol Samples were applied to microarrays enclosed in Agilent microarray hybridization chambers. Hyrbidization protocol: Agilent Two-color Microarray-Based Gene Expression Analysis v5.
Scan protocol Scanned on an Agilent Microarray Scanner.
Images were quantified using Agilent Feature Extraction Software (version 9.5.3.1).
Description Biological replicate 1 of 2. Stable clones of C2C12 cells ectopically expressing either control or Mybbp1a-targeting shRNA. Comparative gene expression profiling of these two samples.
Ctrl vs knockdown-rep1
Raw data file: Mybbp1a-rep1.txt
Data processing Agilent Feature Extraction Software (v 9.5.3.1) was used for image analysis and quantitation. Background method: Spatial Detrend Surface Value. Signal measurement method: Density-Mean background. Normalization method: Rank consistency linear LOWESS normalization.
 
Submission date Aug 10, 2011
Last update date Aug 10, 2011
Contact name Bertrand Tan
Organization name Chang Gung University
Department Department of Biomedical Sciences
Street address 259 Wen-Hwa 1st Road
City Kwei-San, Tao-Yuan
ZIP/Postal code 333
Country Taiwan
 
Platform ID GPL7202
Series (1)
GSE31319 Murine Myoblast C2C12 Cells: Control vs. Mybbp1a Knockdown

Data table header descriptions
ID_REF
VALUE normalized log2 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
A_51_P100021 0.005342172
A_51_P100034 -0.04763218
A_51_P100052 0
A_51_P100063 0.354775005
A_51_P100084 -0.026432414
A_51_P100099 -0.013047816
A_51_P100155 -0.331816542
A_51_P100174 0.290669681
A_51_P100181 -0.179208058
A_51_P100218 -0.09920768
A_51_P100227 -0.189033559
A_51_P100238 -0.239998998
A_51_P100246 -0.20700666
A_51_P100289 0.264988816
A_51_P100298 -0.870256302
A_51_P100309 -0.099548271
A_51_P100327 1.512865947
A_51_P100347 -0.264171183
A_51_P100379 -0.335750598
A_51_P100428

Total number of rows: 40477

Table truncated, full table size 915 Kbytes.




Supplementary file Size Download File type/resource
GSM776553.txt.gz 15.6 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap