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Sample GSM3447228 Query DataSets for GSM3447228
Status Public on Mar 05, 2019
Title WT L4 B: Lactation day 4, rep 2
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 10.048
10338002 5.88172
10338003 8.66556
10338004 8.10445
10338005 2.35928
10338006 2.59688
10338007 2.90665
10338008 3.53389
10338009 7.52018
10338010 2.36616
10338011 5.30506
10338012 2.48226
10338013 2.24464
10338014 2.29099
10338015 2.25067
10338016 7.0022
10338017 11.3857
10338018 6.34492
10338019 4.72926
10338020 7.40711

Total number of rows: 35556

Table truncated, full table size 586 Kbytes.




Supplementary file Size Download File type/resource
GSM3447228_WT_L4_B.ga.cel.gz 4.3 Mb (ftp)(http) CEL
Processed data included within Sample table
Processed data are available on Series record

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