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Sample GSM896332 Query DataSets for GSM896332
Status Public on Apr 11, 2012
Title M5616-liver-Chronic, 460971_A03
Sample type RNA
 
Source name Woodchuck liver, chronic
Organism Marmota monax
Characteristics tissue: liver
whv infection status: chronic
sample identifier: M5616
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from woodchuck liver tissues using the QIAamp RNA Blood Mini Kit (Qiagen Inc., Valencia, CA).
Label Cy3
Label protocol 10 μg of total RNA was reverse-transcribed using the SuperScript double-stranded cDNA synthesis kit (Invitrogen, Inc., Calsbad, CA). After precipitation, double-stranded cDNA was labelled with Cy3 by using the Roche NimbleGen One-color DNA Labelling Kit (Roche NimbleGen, Inc., Madison, WI).
 
Hybridization protocol Woodchuck Gene Expression HX3 Microarrays were hybridized with 6.7 μg Cy3-labelled cDNA for 16-20 hours at 42ºC and were washed and dried according to the manufacturer’s instructions.
Scan protocol Microarrays were scanned using a Roche NimbleGen MS200 Microarray Scanner at 2 μm pixel resolution. Features were extracted using NimbleScan Software.
Description 460971_A03
mRNA
Data processing The gene expression data was normalized by the Robust Multichip Average (RMA) algorithm implemented in Partek Genomics Suite 6.5 (Partek, St. Louis MO).
 
Submission date Mar 15, 2012
Last update date Apr 11, 2012
Contact name Donavan Cheng
E-mail(s) donavan.cheng@gmail.com
Organization name Hoffmann-LaRoche
Department Translational Research Sciences
Street address 340 Kingsland Ave
City Nutley
State/province NJ
ZIP/Postal code 07110
Country USA
 
Platform ID GPL15354
Series (2)
GSE36250 Transcriptomic analysis of the woodchuck model of chronic hepatitis B
GSE36533 Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Liver gene expression in uninfected, resolved and chronically infected woodchucks

Data table header descriptions
ID_REF
VALUE Log2 RMA value

Data table
ID_REF VALUE
Chimeric_isotig02648 8.52001
Chimeric_isotig05571 7.66787
Chimeric_isotig05812 9.37068
Chimeric_isotig06356 8.98598
Chimeric_isotig06378 9.44839
Chimeric_isotig06494 10.7265
Chimeric_isotig06667 7.11397
Chimeric_isotig06765 8.58883
Chimeric_isotig07262 10.2048
Chimeric_isotig07407 5.84769
Chimeric_isotig08256 6.9464
Chimeric_isotig08537 6.89314
Chimeric_isotig08963 6.73545
Chimeric_isotig09077 9.29625
Chimeric_isotig09205 8.56877
Chimeric_isotig09239 10.1315
Chimeric_isotig09244 7.95572
Chimeric_isotig09305 8.38654
Chimeric_isotig09306 6.88635
Chimeric_isotig09439 10.1081

Total number of rows: 36184

Table truncated, full table size 1188 Kbytes.




Supplementary file Size Download File type/resource
GSM896332_460971_A03_532.pair.gz 11.7 Mb (ftp)(http) PAIR
Processed data included within Sample table

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