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Sample GSM1586629 Query DataSets for GSM1586629
Status Public on Jan 17, 2015
Title Embryonic day 18 replicate 2
Sample type RNA
 
Channel 1
Source name Mouse liver from embryonic day 18
Organism Mus musculus
Characteristics Stage: Embryonic
age: embryonic day 18
cell type: immature 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 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 1.700797953
A_51_P100034 -0.710401865
A_51_P100052 -1.32687319
A_51_P100063 -2.034879761
A_51_P100084 1.371715361
A_51_P100099 0.061099066
A_51_P100155 0.433572691
A_51_P100174 4.853712183
A_51_P100181 0.478727331
A_51_P100218 -0.419434635
A_51_P100227 1.265094817
A_51_P100238 1.396791766
A_51_P100246 0.124884142
A_51_P100289 0.964471879
A_51_P100298 -0.886177123
A_51_P100309 -0.832563414
A_51_P100327 -2.666081614
A_51_P100347 -0.03365262
A_51_P100379 1.181172531
A_51_P100428 -0.113710401

Total number of rows: 41267

Table truncated, full table size 1021 Kbytes.




Supplementary file Size Download File type/resource
GSM1586629_M7-C.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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