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Sample GSM215762 Query DataSets for GSM215762
Status Public on Aug 09, 2007
Title mgb +/- male, whole E15 embryo (HTM_532)
Sample type RNA
Source name HTM_532
Organism Mus musculus
Characteristics mgb +/- male, whole E15 embryo
Extracted molecule total RNA
Extraction protocol Whole embryos were harvested from timed pregnant females at embryonic day 15 (E15). Embryonic bladders were micro-dissected, snap frozen in liquid nitrogen, and stored at -80C. Bladder tissues were homogenized using a Kontes-pellet pestle (Fisher). High quality total cellular RNA was isolated using the Absolutely RNA Miniprep kit according to the manufacture’s protocol (Stratagene, La Jolla, CA). Sample concentration and purity was determined by optical density 260/280 nm ratios using standard procedures. RNA samples were stored at -80C until further use. Total cellular RNA was extracted from whole embryos by homogenizing samples in TRIzol Reagent as outlined by the supplier (Invitrogen, Carlsbad, CA).
Label biotin
Label protocol standard Affymetrix protocol
Hybridization protocol For expression profiling, 25 ng total RNA per sample was processed using isothermal amplification SPIA Biotin System (NuGEN Technologies, Inc.) and 2.2 µg of cDNA was hybridized per microarray. The microarrays utilized were both obtained from Affymetrix (Santa Clara, CA) and included either the Mouse Genome 430 2.0 GeneChip or the Custom GeneChip Chr11/16. After 16 hours of hybridization at 45ºC, washing and staining of microarrays was performed using a Fluidics Station 450 (Affymetrix, Santa Clara, CA). GeneChips were scanned in a GeneChip Scanner 3000 (Affymetrix, Santa Clara, CA). All steps of sample and microarray processing were performed according to manufacturer's recommendations (Affymetrix, Santa Clara, CA).
Scan protocol standard Affymetrix protocol
Description n/a
Data processing Probe set expression estimates were calculated using WPP algorithm (Auer et al, 2007).
Submission date Aug 07, 2007
Last update date Aug 28, 2018
Contact name Kirk M McHugh
Phone 614-355-2817
Organization name Columbus Children's Hospital
Department Cell & Developmental Biology
Street address 700 Children's Drive
City Columbus
State/province OH
ZIP/Postal code 43205
Country USA
Platform ID GPL1261
Series (1)
GSE8715 Transcriptional Profiling of the Megabladder Mouse - A Unique Model of Bladder Dysmorphogenesis
Reanalyzed by GSE119085

Data table header descriptions
VALUE WPP algorithm signal

Data table
1460332_at 5.343
1427735_a_at 2.927
1418726_a_at 8.032
1450952_at 5.352
1418957_at 5.198
1422644_at 5.893
1424967_x_at 6.264
1424279_at 4.526
AFFX-18SRNAMur/X00686_5_at 5.089
1417806_at 5.678
1416646_at 5.542
1435667_at 5.780
1427485_at 7.021
1416645_a_at 6.101
1417917_at 7.004
1420693_at 6.388
1457052_at 4.964
1428444_at 5.922
1418199_at 5.467
1425260_at 5.001

Total number of rows: 45101

Table truncated, full table size 769 Kbytes.

Supplementary file Size Download File type/resource
GSM215762.CEL.gz 3.3 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table
Processed data are available on Series record

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