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Sample GSM1586632 Query DataSets for GSM1586632
Status Public on Jan 17, 2015
Title Post-natal day 5 replicate 3
Sample type RNA
 
Channel 1
Source name Mouse liver from post-natal day 5
Organism Mus musculus
Characteristics Stage: Postnatal
age: post-natal day 5
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 2 of 2.
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 0.271965394
A_51_P100034 -0.458968123
A_51_P100052 -1.291212637
A_51_P100063 -1.478251626
A_51_P100084 0.423832649
A_51_P100099 0.487655345
A_51_P100155 0.573698892
A_51_P100174 5.055738041
A_51_P100181 0.843189628
A_51_P100218 -0.141343778
A_51_P100227 0.96670255
A_51_P100238 -0.521010809
A_51_P100246 -0.064717371
A_51_P100289 0.496384081
A_51_P100298 -0.665434002
A_51_P100309 -0.797115141
A_51_P100327 -2.518871573
A_51_P100347 0.912758484
A_51_P100379 0.507735355
A_51_P100428 1.649437393

Total number of rows: 41267

Table truncated, full table size 1021 Kbytes.




Supplementary file Size Download File type/resource
GSM1586632_M10-4.txt.gz 15.4 Mb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table
Processed data are available on Series record

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