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Sample GSM715867 Query DataSets for GSM715867
Status Public on May 01, 2011
Title Undiff_Hyb1
Sample type RNA
 
Source name Undiff
Organism Mus musculus
Characteristics strain: Foxl1-CRE; RosaYFP mouse
cell type: undifferentiated adult hepatic progenitor cells
Treatment protocol Cells differentiated into cholaglocytes and hepatocytes in vitro.
Growth protocol Foxl1-CRE mice were crossed with Rosa26R FYP reporter mice. Offspring were 6 to 10 weeks old.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from liver samples and sorted cells using Trizol and RNeasy Mini Kit (Qiagen) according to the manufacturer’s instructions.
Label Cy3
Label protocol Amplified cDNA was prepared using the WT-Ovation Pico Amplification System (NuGEN Technologies). Amplified cDNA was directly labeled using the BioPrime Array CGH Genomic Labeling System with Cy3-labeled nucleotides (GE Amersham Biosciences).
 
Hybridization protocol Labeled samples were hybridized overnight to the Agilent 4X44 Whole Mouse Genome Array.
Scan protocol Arrays were washed and then scanned with the model G2565B Agilent DNA microarray Scanner (Agilent Technologies).
Data processing Median intensities of each element on the array were captured with Agilent Feature Extraction version 9.53 (Agilent Technologies). Quality control diagnostic plots were prepared for each array, and those failing to exhibit high-quality hybridizations were excluded from further analysis, resulting in the final dataset containing four biological replicates for each condition. The subsequent analysis was performed as previously (Rieck et al. 2009).
 
Submission date Apr 27, 2011
Last update date May 01, 2011
Contact name Jonathan Schug
E-mail(s) jschug@pennmedicine.upenn.edu
Phone 215 898 0773
Organization name University of Pennsylvania
Department School of Medicine
Lab Next-Generation Sequencing Core
Street address 12-156 Smilow Ctr Trans Research
City Philadelphia
State/province Pennsylvania
ZIP/Postal code 19104-5160
Country USA
 
Platform ID GPL10333
Series (2)
GSE28891 Foxl1-Cre-marked Adult Hepatic Progenitors Have Clonogenic and Bi-Lineage Differentiation Potential - Differentiated vs Primary
GSE28892 Foxl1-Cre-marked Adult Hepatic Progenitors Have Clonogenic and Bi-Lineage Differentiation Potential

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
12 9
13 15
14 3703
15 53
16 3676
17 2061
18 10
20 100468
21 24
22 321
23 98044
24 2848
25 1438
26 29
27 6888
28 249
30 19567
31 7199
33 263
35 56189

Total number of rows: 37908

Table truncated, full table size 357 Kbytes.




Supplementary file Size Download File type/resource
GSM715867_252665511047_1.txt.gz 9.0 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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