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Sample GSM683722 Query DataSets for GSM683722
Status Public on Feb 03, 2014
Title MN clebuterol replicate 3 vs WT clebuterol replicate 1
Sample type RNA
 
Channel 1
Source name MN.clenbuterol
Organism Mus musculus
Characteristics strain/background: C57BL6/J
genotype: myostatin null
age: 7 weeks
gender: male
tissue: skeletal muscle (tibialis anterior)
treatment: clenbuterol
Treatment protocol At 5 weeks of age, mice were given free access to either plain tap water (control) or tap water with 20 ppm clenbuterol hydrochloride (clenbuterol). Treatment duration was 2 weeks. Animals were sacrificed and tibialis anterior muscles were dissected from the right hind limbs.
Growth protocol Wild type (WT) and myostatin null (MN) mice were weaned from dams at 3 weeks of age and individually housed until 7 week of age. They were given free access to a standard chow diet.
Extracted molecule total RNA
Extraction protocol Muscles were disrupted in Trizol with a TissueLyser and isolation of total RNA were carried out according to the manufacturers’ directions (Invitrogen). Isolated RNA was quantified by spectrophotometry using a spectrophotometer. Prior to microarray, RNA quality was determined using a 2100 Bioanalyzer (Agilent, Palo Alto, CA).
Label Alexa Fluor 647
Label protocol 1 ug of total RNA was amplified using the amino-allyl MessageAmp II kit from Ambion. Amplified RNA was then labeled with Alexa Fluor 555 or 647 and cleaned in an RNeasy column.
 
Channel 2
Source name WT.clenbuterol
Organism Mus musculus
Characteristics strain/background: C57BL6/J
genotype: wild type
age: 7 weeks
gender: male
tissue: skeletal muscle (tibialis anterior)
treatment: clenbuterol
Treatment protocol At 5 weeks of age, mice were given free access to either plain tap water (control) or tap water with 20 ppm clenbuterol hydrochloride (clenbuterol). Treatment duration was 2 weeks. Animals were sacrificed and tibialis anterior muscles were dissected from the right hind limbs.
Growth protocol Wild type (WT) and myostatin null (MN) mice were weaned from dams at 3 weeks of age and individually housed until 7 week of age. They were given free access to a standard chow diet.
Extracted molecule total RNA
Extraction protocol Muscles were disrupted in Trizol with a TissueLyser and isolation of total RNA were carried out according to the manufacturers’ directions (Invitrogen). Isolated RNA was quantified by spectrophotometry using a spectrophotometer. Prior to microarray, RNA quality was determined using a 2100 Bioanalyzer (Agilent, Palo Alto, CA).
Label Alexa Fluor 555
Label protocol 1 ug of total RNA was amplified using the amino-allyl MessageAmp II kit from Ambion. Amplified RNA was then labeled with Alexa Fluor 555 or 647 and cleaned in an RNeasy column.
 
 
Hybridization protocol Samples were suspended in SlideHyb#1 (Ambion), applied to slides on a Maui mixer and incubated O/N at 42ûC. After hybridization, the slides were washed sequentially in 1X SSC, 0.2% SDS; 0.1X SSC, 0.2% SDS; and 0.1X SSC for 5 minutes each, and spun dry.
Scan protocol Scanned on an Axon GenePix 4000B scanner.
Images were quantified using Axon GenePix 6.0.
Description C1
Myostatin null with clenbuterol treatment (replicate 3) versus wild-type with clenbuterol treatment (replicate 1).
Data processing Median foreground intensites (no background subtraction) were normalized within arrays by print-tip loess normalization and between arrays using the scale method in limma. Spots with -100 flags were weighted zero before normalizations.
 
Submission date Feb 28, 2011
Last update date Feb 03, 2014
Contact name Anna C Dilger
E-mail(s) adilger2@illinois.edu
Phone 217-333-3986
Fax 217-244-5142
Organization name University of Illinois
Department Animal Science
Street address Meat Science Lab 1503 S Maryland Drive
City Urbana
State/province IL
ZIP/Postal code 61801
Country USA
 
Platform ID GPL9002
Series (1)
GSE27577 Tibialis anterior muscle of myostatin null mice treated with clenbuterol

Data table header descriptions
ID_REF
VALUE Normalized log2 (Alexa Fluor 647/Alexa Fluor 555)

Data table
ID_REF VALUE
1 -0.146188446
2 0.00411829
3 -0.265422978
4 -0.103263779
5 0.172103341
6 -0.054693298
7 -0.156707807
8 -0.739128909
9 -0.146964908
10 -0.101909003
11 0.065533633
12 0.049319643
13 -0.052887331
14 0.073631109
15 -0.00889423
16 0.056313696
17 -0.006775678
18 0.272998237
19 0.085152518
20 -0.190743754

Total number of rows: 38976

Table truncated, full table size 688 Kbytes.




Supplementary file Size Download File type/resource
GSM683722.gpr.gz 3.2 Mb (ftp)(http) GPR
Processed data included within Sample table

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