NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM865221 Query DataSets for GSM865221
Status Public on Dec 23, 2014
Title 13265
Sample type RNA
 
Source name 25W DEN + 5W αPlGF surrounding tissue
Organism Mus musculus
Characteristics strain: 129S2/SvPasCrl
gender: male
age: 210 days
tissue: liver (non-tumor)
induction: 25W diethylnitrosamine
treatment: 5 weeks αPlGF-treatment
Extracted molecule total RNA
Extraction protocol Qiagen
Label Cy3
Label protocol RNA concentration and purity were determined spectrophotometrically using the Nanodrop ND-1000 (Nanodrop Technologies) and RNA integrity was assessed using a Bioanalyser 2100 (Agilent). Per sample, an amount of 100 ng of total RNA spiked with 10 viral polyA transcript controls (Agilent) was converted to double stranded cDNA in a reverse transcription reaction. Subsequently the sample was converted to antisense cRNA, amplified and labeled with Cyanine 3-CTP (Cy3) in an in vitro transcription reaction according to the manufacturer’s protocol (Agilent).
 
Hybridization protocol Purified and labeled cRNA (600 ng of Cy3 labeled cRNA) was hybridised on Agilent Sureprint G3 Mouse GE 8x60k Microarrays followed by (manual) washing, according to the manufacturer’s procedures.
Scan protocol To assess the raw probe signal intensities, arrays were scanned using the Agilent DNA MicroArray Scanner with surescan High-Resolution Technology and probe signals were quantified using Agilent’s Feature Extraction software (version 10.7.3.1).
Description 25W DEN + 5W αPlGF (treatment) surrounding (non tumour) tissue
Data processing The dataset contains the Agilent processed signal values (i.e., feature gProcessedSignal from Agilent Feature Extraction v10.7.3.1) after an additional quantile normalization. Intensities were base 2 log-transformed.
 
Submission date Jan 24, 2012
Last update date Dec 23, 2014
Contact name Rekin's Janky
E-mail(s) Nucleomics.Bioinformatics@vib.be
Organization name VIB
Department Nucleomics Core
Street address Herestraat 49 Box 816
City Leuven
ZIP/Postal code B-3000
Country Belgium
 
Platform ID GPL10787
Series (1)
GSE35289 Placental growth factor as potential target against hepatocellular carcinoma in an orthotopic mouse model.

Data table header descriptions
ID_REF
VALUE The dataset contains the Agilent processed signal values (i.e., feature gProcessedSignal from Agilent Feature Extraction v10.7.3.1) after an additional quantile normalization. Intensities were base 2 log-transformed.

Data table
ID_REF VALUE
A_30_P01017425 4.83367198506198
A_30_P01017426 5.61307513021015
A_30_P01017427 2.23533695218883
A_30_P01017428 5.12841740430223
A_30_P01017429 1.69962820533027
A_30_P01017430 3.57713533320945
A_30_P01017431 1.72825677416977
A_30_P01017432 7.23636474300852
A_30_P01017433 4.14343031730297
A_30_P01017434 5.60707249630508
A_30_P01017435 1.77358662044401
A_30_P01017436 1.57993509593728
A_30_P01017437 5.25807933626294
A_30_P01017438 1.75729583870225
A_30_P01017439 5.4509802027909
A_30_P01017440 1.66755481260761
A_30_P01017441 2.59100038305545
A_30_P01017442 7.22580070396804
A_30_P01017443 8.30805407048621
A_30_P01017444 1.69114020215626

Total number of rows: 51897

Table truncated, full table size 1565 Kbytes.




Supplementary file Size Download File type/resource
GSM865221_US22502572_252800512912_S01_GE1_107_Sep09_1_4.txt.gz 11.8 Mb (ftp)(http) TXT
Processed data included within Sample table

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