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Sample GSM4475073 Query DataSets for GSM4475073
Status Public on Sep 09, 2021
Title Liver tissue from YAP KO mice (AAV8-TBG-CRE treated) at Day 2 after TCPOBOP administration_rep2
Sample type RNA
 
Source name YAP KO mice liver tissue Day 2 post-TCPOBOP
Organism Mus musculus
Characteristics treatment: Day 2 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 2 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 229.2 A 0.287743
AFFX-BioB-M_at 170.1 A 0.41138
AFFX-BioB-3_at 96.3 A 0.368438
AFFX-BioC-5_at 845.3 P 0.003595
AFFX-BioC-3_at 171.5 A 0.287743
AFFX-BioDn-5_at 1611.5 P 0.004484
AFFX-BioDn-3_at 4316.5 P 0.004998
AFFX-CreX-5_at 11301.3 P 0.000095
AFFX-CreX-3_at 12507.5 P 0.000044
AFFX-DapX-5_at 130.1 A 0.262827
AFFX-DapX-M_at 176.9 A 0.083592
AFFX-DapX-3_at 37.4 A 0.686277
AFFX-LysX-5_at 11.2 A 0.58862
AFFX-LysX-M_at 25 A 0.659339
AFFX-LysX-3_at 200.8 P 0.020022
AFFX-PheX-5_at 8.3 A 0.916408
AFFX-PheX-M_at 16 A 0.737173
AFFX-PheX-3_at 112.6 A 0.58862
AFFX-ThrX-5_at 30.6 A 0.783476
AFFX-ThrX-M_at 64.5 A 0.51489

Total number of rows: 45101

Table truncated, full table size 1224 Kbytes.




Supplementary file Size Download File type/resource
GSM4475073_20190704_Dr_Michalopoulos_BB221_mouse_Genome_430_2.0_A.CEL.gz 4.3 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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