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Sample GSM1586627 Query DataSets for GSM1586627
Status Public on Jan 17, 2015
Title Embryonic day 14 replicate 3
Sample type RNA
 
Channel 1
Source name Mouse liver from embryonic day 14
Organism Mus musculus
Characteristics Stage: Embryonic
age: embryonic day 14
cell type: hepatoblasts
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 0.081264676
A_51_P100034 -1.380266402
A_51_P100052 0.401659
A_51_P100063 -1.155734342
A_51_P100084 0.07244145
A_51_P100099 1.298981787
A_51_P100155 1.097151241
A_51_P100174 4.620263357
A_51_P100181 0.95346447
A_51_P100218 0.004521722
A_51_P100227 2.205713654
A_51_P100238 -0.3658224
A_51_P100246 0.843774123
A_51_P100289 0.762274877
A_51_P100298 -1.457094235
A_51_P100309 0.63092026
A_51_P100327 -3.234147693
A_51_P100347 -1.036584299
A_51_P100379 0.68184949
A_51_P100428 -0.581836944

Total number of rows: 41267

Table truncated, full table size 1021 Kbytes.




Supplementary file Size Download File type/resource
GSM1586627_M4.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

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