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Sample GSM4475069 Query DataSets for GSM4475069
Status Public on Sep 09, 2021
Title Liver tissue from YAP KO mice (AAV8-TBG-CRE treated) at Day 0 after TCPOBOP administration_rep1
Sample type RNA
 
Source name YAP KO mice liver tissue Day 0 post-TCPOBOP
Organism Mus musculus
Characteristics treatment: Day 0 post-TCPOBOP
genotype: YAP KO (hepatocyte-specific)
mice: YAP fl/fl mice
gender: female
tissue: liver
Treatment protocol 8-12 weeks old female YAPfl/fl mice were administered AAV8.TBG.PI.Cre.rBG (2.5 E11 viral particles per mouse, i.p.) to obtain hepatocyte specific YAP KO mice. AAV8.TBG.PI.eGFP.WPRE.bGH8 (2.5 E11 viral particles per mouse, i.p.) administered to YAPfl/fl mice served as wild-type (WT) control. Single dose of TCPOBOP (3 mg/kg; prepared in corn oil) was administered by oral gavage 10 days after AAV8 injection. Mice were sacrificed at various time points (0, 1 and 2 days) after TCPOBOP administration. Day 0 animals did not receive any treatment except AAV8 administration.
Growth protocol Following hepatocyte-specific deletion of YAP using AAV8-TBG-CRE, mice were treated with chemical mitogen TCPOBOP and liver tissues harvested at 0, 1, and 2 days after TCPOBOP treatment.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip mouse Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Gene expression data at Day 0 post-TCPOBOP in YAP-KO mice
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
 
Submission date Apr 14, 2020
Last update date Sep 09, 2021
Contact name George K. Michalopoulos
E-mail(s) michalopoulosgk@upmc.edu
Organization name University of Pittsburgh
Street address 200 Lothrop Street
City Pittsburgh
State/province Pennsylvania
ZIP/Postal code 15261
Country USA
 
Platform ID GPL1261
Series (1)
GSE148607 Hepatocyte-specific YAP is crucial for CAR-driven hepatocyte proliferation, but not for induction of drug metabolism genes in mice

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 474.9 P 0.00844
AFFX-BioB-M_at 463.5 P 0.004017
AFFX-BioB-3_at 286 P 0.01667
AFFX-BioC-5_at 1914.5 P 0.000147
AFFX-BioC-3_at 1122 P 0.000446
AFFX-BioDn-5_at 3651.9 P 0.00011
AFFX-BioDn-3_at 9846.5 P 0.000581
AFFX-CreX-5_at 23951.1 P 0.00006
AFFX-CreX-3_at 26636.8 P 0.000044
AFFX-DapX-5_at 51.9 A 0.425962
AFFX-DapX-M_at 104.1 A 0.340661
AFFX-DapX-3_at 148.5 A 0.470241
AFFX-LysX-5_at 8.6 A 0.699394
AFFX-LysX-M_at 85.8 A 0.617401
AFFX-LysX-3_at 115.1 A 0.102165
AFFX-PheX-5_at 12.4 A 0.783476
AFFX-PheX-M_at 13.9 A 0.834139
AFFX-PheX-3_at 106.2 A 0.470241
AFFX-ThrX-5_at 22.7 A 0.783476
AFFX-ThrX-M_at 12.2 A 0.617401

Total number of rows: 45101

Table truncated, full table size 1224 Kbytes.




Supplementary file Size Download File type/resource
GSM4475069_20190703_Dr_Michalopoulos_BB276_mouse_Genome_430_2.0_A.CEL.gz 3.9 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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