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Sample GSM8137793 Query DataSets for GSM8137793
Status Public on Jul 19, 2024
Title TGFB1_48h_2
Sample type RNA
 
Source name hepatocyte isolated from male DBA/2J mice (8-12 weeks old)
Organism Mus musculus
Characteristics treatment: 5ng/mL recombinant TGF-β1
time: 48h
Treatment protocol 5ng/mL recombinant TGF-β1 was added to serum-free culture medium for 1, 6, 24 and/or 48 hours. Control conditions included cells maintained for the same period in a serum-free medium without TGF-beta1.
Growth protocol Primary hepatocytes were isolated from livers of male DBA/2J mice (8-12 weeks old) using collagenase perfusion. Hepatocytes were plated on collagen-coated 6-well plates at a density of 3x105 cells/well in Williams' medium E supplemented with 10% FBS, 2mM L-glutamine, 1% penicillin/streptomycin and 100nM dexamethasone. Hepatocytes were allowed to attach, and medium was exchanged after 4h with Williams medium E supplemented with 2mM L-glutamine and 1% penicillin/streptomycin.
Extracted molecule total RNA
Extraction protocol After cytokine treatment, cultured cells were washed twice with PBS. Next, total RNA was isolated using the Total RNA Kit, peqGOLD (Cat No. 13-6834-02) or the InviTrap®Spin Universal RNA Mini Kit from Stratec (1060100300, Birkenfeld, Germany) according to manufacturers´ instructions. RNA concentration was measured with the Infinite M200 microplate reader (Tecan, Switzerland).
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
 
Hybridization protocol Hybridization (16h x 45°C) was processed according to the standard Affymetrix protocol.
Scan protocol Affymetrix GeneArray Scanner3000
Data processing The data were analyzed with R (v 4.2.2.). Gene expression profiling was performed using arrays of Mouse430_2 from Affymetrix. A Custom CDF Version 25 with Entrez based gene definitions was used to annotate the arrays. The Raw fluorescence intensity values were normalized applying quantile normalization, RMA background correction and Medianpolish Probeset Summary
 
Submission date Mar 08, 2024
Last update date Jul 19, 2024
Contact name Carolina Delatorre
E-mail(s) carolina.delatorre@medma.uni-heidelberg.de
Organization name University Heidelberg
Street address Theodor-Kutzer-Ufer 1-3
City Mannheim
ZIP/Postal code 68167
Country Germany
 
Platform ID GPL34289
Series (1)
GSE261215 Transcription profiling by array of mouse hepatocytes following treatment with growth factor beta 1 in a time series

Data table header descriptions
ID_REF
VALUE RMA signal intensity

Data table
ID_REF VALUE
100009600 5.79660
100012 2.66765
100017 6.93198
100019 7.77662
100034251 5.07993
100034675 3.74274
100034739 3.59764
100034748 3.84998
100036520 3.41938
100036521 8.08566
100036523 3.79847
100036768 3.09995
100037258 8.04929
100037262 4.24420
100037278 6.98477
100038347 4.80234
100038358 3.18911
100038371 2.62909
100038373 2.36270
100038392 4.46166

Total number of rows: 18243

Table truncated, full table size 259 Kbytes.




Supplementary file Size Download File type/resource
GSM8137793_Muellenbach_270710_10_DBA+48h_TGFb_1603_Mouse430_2_.CEL.gz 3.5 Mb (ftp)(http) CEL

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