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Sample GSM3447227 Query DataSets for GSM3447227
Status Public on Mar 05, 2019
Title WT L4 A: Lactation day 4, rep 1
Sample type RNA
 
Source name Mammary Epithelial Cells, depleted of mammary adipocytes, at lactation day 4
Organism Mus musculus
Characteristics strain: FVB
Sex: female
tissue: Mammary Epithelial Cells depleted of mammary adipocytes
parity: 1st
stage of mammary development: Secretory Activation
Treatment protocol Mammary Epithelial Cells (MEC) at pregnant day 14 and lactation day 4 were depleted of the mammary adipocytes by rapid enzymatic tissue digestion (PMID: 20739508), washed with PBS, pelleted, and snap frozen for total RNA expraction.
Growth protocol FVB mothers were staged for pregnancy by post coital plug and sacrificed at either day 14 of pregnancy or day 4 of lactation (day 1 is the first morning litters are born).
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions. Total RNA was cleaned up and DNA was digested on column according to the Qiagen Rneasy mini kit.
Label Biotin
Label protocol Biotinylated sense-strand DNA targets from total RNA were generated according to the Affymetrix WT PLUS Reagent Kit for GeneChip® Whole Transcript (WT) Expression Arrays
 
Hybridization protocol Array Strips Hybridization for the GeneAtlas® Instrument was carried out according to the Affymetrix protocol hybridizing array strips on the GeneAtlas® System.
Scan protocol Array strips were scanned using the GeneAtlas™ Imaging Station according to the Affymetrix protocol.
Description Gene expression data from MECs following secretory activation.
Data processing Raw data were GC-RMA (robust multiarray averaging) normalized, log2 transformed, and statistics performed using the Partek Genomic Suite (Partek, St. Louis, MO).
 
Submission date Oct 25, 2018
Last update date May 31, 2022
Contact name Michael C. Rudolph
E-mail(s) Michael-rudolph@ouhsc.edu
Organization name OUHSC
Department Physiology
Lab Rudolph Lab
Street address 975 NE 10th St. BRC North rm 364
City Oklahoma City
State/province OK
ZIP/Postal code 73104
Country USA
 
Platform ID GPL11533
Series (1)
GSE121819 Liver X Receptor α Activation Enhances Cholesterol Secretion in Lactating Mammary Epithelium

Data table header descriptions
ID_REF
VALUE Raw data were GC-RMA (robust multiarray averaging) normalized and log2 transformed.

Data table
ID_REF VALUE
10338001 9.99949
10338002 6.20366
10338003 8.72037
10338004 7.99871
10338005 2.34605
10338006 2.58254
10338007 2.90939
10338008 3.67884
10338009 7.86829
10338010 2.34739
10338011 5.53897
10338012 2.44083
10338013 2.27802
10338014 2.29773
10338015 2.25261
10338016 7.31833
10338017 11.2687
10338018 6.6566
10338019 4.98263
10338020 7.74525

Total number of rows: 35556

Table truncated, full table size 586 Kbytes.




Supplementary file Size Download File type/resource
GSM3447227_WT_L4_A.ga.cel.gz 4.2 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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