NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1586635 Query DataSets for GSM1586635
Status Public on Jan 17, 2015
Title Post-natal day 56 replicate 3
Sample type RNA
 
Channel 1
Source name Mouse liver from post-natal day 56
Organism Mus musculus
Characteristics Stage: Postnatal
age: post-natal day 56
cell type: hepatocytes
Extracted molecule total RNA
Extraction protocol Total RNA from whole livers taken at different developmental timepoints (embryonic day 14, embryonic day 18, post-natal day 5 and post-natal day 56) along with hepatoblasts isolated from E14 livers and immature hepatocytes isolated from E18 livers was extracted and purified using the Qiagen RNeasy Mini Kit.
Label Cy5
Label protocol 2 µg of total RNA was reverse transcribed and amplified by using an RNA amplification kit from Ambion. Fifteen micrograms of amplified RNA were labeled by direct chemical coupling to the Cy5 NHS ester (Amersham Biosciences). Normal adult mouse liver (Agilent) was used as control and Cy3 labeled. Labeled RNAs were purified, fragmented, and used as probes to hybridize microarrays.
 
Channel 2
Source name Normal adult mouse liver
Organism Mus musculus
Characteristics tissue: Liver
Extracted molecule total RNA
Extraction protocol Total RNA from whole livers taken at different developmental timepoints (embryonic day 14, embryonic day 18, post-natal day 5 and post-natal day 56) along with hepatoblasts isolated from E14 livers and immature hepatocytes isolated from E18 livers was extracted and purified using the Qiagen RNeasy Mini Kit.
Label Cy3
Label protocol 2 µg of total RNA was reverse transcribed and amplified by using an RNA amplification kit from Ambion. Fifteen micrograms of amplified RNA were labeled by direct chemical coupling to the Cy5 NHS ester (Amersham Biosciences). Normal adult mouse liver (Agilent) was used as control and Cy3 labeled. Labeled RNAs were purified, fragmented, and used as probes to hybridize microarrays.
 
 
Hybridization protocol Hybridization procedure followed manufacturer direction
Scan protocol Scanned on Axon Instruments (V1.00) GenePix 4000B scanner
Description Biological replicate 3 of 3.
Data processing Microarray data for liver samples used in this study was normalized and analyzed with limma R package
 
Submission date Jan 16, 2015
Last update date Jan 17, 2015
Contact name Jinyu Li
E-mail(s) jinyu.li.1@stonybrook.edu
Organization name Stony Brook University
Department Cancer Center
Street address 101 Nicolls Rd
City Stony Brook
State/province NY
ZIP/Postal code 11794
Country USA
 
Platform ID GPL7202
Series (1)
GSE65063 Reciprocal interaction of Wnt and RXR-α pathways in hepatocyte development and hepatocellular carcinoma

Data table header descriptions
ID_REF
VALUE lowess normalized log2 ratio from limma R package (test/control)

Data table
ID_REF VALUE
A_51_P100021 0.406952619
A_51_P100034 0.5213162
A_51_P100052 -1.460701795
A_51_P100063 -2.273821833
A_51_P100084 1.184091019
A_51_P100099 -0.730851888
A_51_P100155 0.360437951
A_51_P100174 0.80865124
A_51_P100181 0.824830607
A_51_P100218 0.28524312
A_51_P100227 0.28239546
A_51_P100238 1.271274934
A_51_P100246 -0.096386159
A_51_P100289 -0.330420366
A_51_P100298 -1.288186376
A_51_P100309 1.219053913
A_51_P100327 -1.994947834
A_51_P100347 -0.728874367
A_51_P100379 0.581311373
A_51_P100428 -0.436502639

Total number of rows: 41267

Table truncated, full table size 1020 Kbytes.




Supplementary file Size Download File type/resource
GSM1586635_M13.txt.gz 15.5 Mb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table
Processed data are available on Series record

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