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Sample GSM3319228 Query DataSets for GSM3319228
Status Public on Apr 25, 2019
Title beta islets from WT pregnant mice, rep 1
Sample type RNA
 
Source name non-transgenic
Organism Mus musculus
Characteristics Sex: beta islet
gestation: Pregnant
gestation day: 16.5
tissue: beta islet
genotype: CON
Extracted molecule total RNA
Extraction protocol Islets were isolated from bPRLR-KO and non-transgenic pregnant mice using retrograde perfusion of the pancreatic duct with collagenase, purified using density centrifugation, hand-picked and cultured. Islets from pregnant mice were hand-picked in RPMI media containing 2% serum then immediately processed for RNA. For in vitro islet experiments, hand-picked islets were cultured overnight in RPMI supplemented with 10% FBS.
Label biotin
Label protocol Samples were enzymatically fragmented and biotinylated using the WT Terminal Labeling Kit (Affymetrix)
 
Hybridization protocol Samples were hybridized using Affymetrix hybridization kit materials • Heat cocktails at 99° for 5 minutes, then 42° for 5 minutes centrifuge at max speed for 1 minute (N.B. this deviates from Affy SOP). • Transfer 200μl of hyb solution to each array, then tape holes and parafilm. • Hybridize 16 hours at 45° at 60rpm• Fluidics washing is FS450_0001
Scan protocol Affymetrix Gene ChIP Scanner 3000 7G
Description beta islets from WT pregnant mice
Data processing Data were processed using GeneBASE software. MAT background correction were applied to probe intensities, gene level expression were summarized from the corrected intensities and then quantile normalized.
probe group file: MoGene-2_0-st.pgf
meta-probeset file: MoGene-2_0-st.mps
 
Submission date Aug 05, 2018
Last update date Apr 25, 2019
Contact name Mark Emile Pepin
E-mail(s) pepinme@gmail.com
Organization name University of Alabama at Birmingham
Department Biomedical Engineering
Lab Adam Wende Laboratory
Street address 1825 University Blvd
City Birmingham
State/province AL
ZIP/Postal code 35294-2182
Country USA
 
Platform ID GPL16570
Series (1)
GSE118134 Identification of Pregnancy-specific Transcriptional Mediators of Pancreatic Islet Adaptation Regulated by Prolactin Receptor Signaling in Mice

Data table header descriptions
ID_REF
VALUE Quantile normalized gene level expression values from GeneBASE

Data table
ID_REF VALUE
17200001 5.93487
17200003 6.73613
17200005 5.81834
17200007 5.76472
17200009 6.70537
17200011 5.08049
17200013 4.61195
17200015 6.25207
17200017 4.40042
17200019 4.79878
17200021 6.15478
17200023 6.59509
17200025 5.88881
17200027 5.39845
17200029 3.73605
17200031 3.29753
17200033 4.40473
17200035 3.32332
17200037 5.62569
17200039 3.52407

Total number of rows: 41345

Table truncated, full table size 682 Kbytes.




Supplementary file Size Download File type/resource
GSM3319228_Ronadip_Banerjee_RB-C2_MoGene-2_0-st_.CEL.gz 8.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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