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Sample GSM143560 Query DataSets for GSM143560
Status Public on Nov 18, 2006
Title JS_8
Sample type RNA
 
Source name bladder
Organism Mus musculus
Characteristics gene reported: SMGA/EGFP transgenic / PMID: 14713859
strain: FVB/N
sex: Unknown
developmental stage: E14
theiler stage: 22
somite count: ND
developmental landmark: Individual fingers visible in the anterior footplate with indentations between the toes which are not discernable
Treatment protocol pool size: N/A
Pooled sample: no
Dissection Method: Bladder region microdissected based on SMGA/EGFP expression.
Female FVB/N mice were time-mated to SMGA/EGFP transgenic males. Pregnant FVB/N mice were euthanized by standard carbon dioxide asphyxiation at 14 days post-coitus. Embryonic samples were euthanized by decapitation and tissues were micro-dissected, rapidly frozen and stored at -80 °C until RNA was extracted for gene expression analysis.
Extracted molecule total RNA
Extraction protocol Qiagen: RNeasy
Label Biotin
Label protocol Biotin-X-X-NHS (EPICENTRE Biotechnologies)
 
Hybridization protocol Affymetrix standard protocol
Amount labeled target hybridization to array: 10 ug
Scan protocol Affymetrix standard protocol
Description >> Amplification protocol <<
Target Amplified manufacturer/kit: TargetAmp™ 2-Round Aminoallyl-aRNA Amplification Kit 1.0 (EPICENTRE Biotechnologies)
Target Amplified protocol: Potter protocols
Rounds of amplification: 2
URL: http://gudmap.hgu.mrc.ac.uk/gudmap/pages/mic_submission.html?id=GUDMAP:6962
Data processing Analysis method: Affymetrix GCOS and Gene Spring and Avadis programs GCOS Tgt value: 1500
 
Submission date Nov 03, 2006
Last update date Aug 28, 2018
Contact name GUDMAP Developers
E-mail(s) gudmap-db@gudmap.org
Phone +44 131 651 8500
Organization name IGMM MRC Human Genetics Unit
Lab GUDMAP Database Group
Street address Crewe Road
City Edinburgh
ZIP/Postal code EH4 2XU
Country United Kingdom
 
Platform ID GPL1261
Series (1)
GSE6223 Gene expression profiles of E14 bladder, urogenital sinus and urethra isolated from SMGA (Actg2) transgenic mice. (GUDMAP Series ID: 6)
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE MAS5-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 1051.52 P 0.000070
AFFX-BioB-M_at 1541.13 P 0.000044
AFFX-BioB-3_at 959.42 P 0.000044
AFFX-BioC-5_at 2690.71 P 0.000044
AFFX-BioC-3_at 3173.53 P 0.000044
AFFX-BioDn-5_at 5433.98 P 0.000044
AFFX-BioDn-3_at 11089.52 P 0.000044
AFFX-CreX-5_at 30856.96 P 0.000052
AFFX-CreX-3_at 37514.23 P 0.000044
AFFX-DapX-5_at 36.93 A 0.108959
AFFX-DapX-M_at 29.53 A 0.455409
AFFX-DapX-3_at 20.47 A 0.529760
AFFX-LysX-5_at 2.01 A 0.883908
AFFX-LysX-M_at 3.38 A 0.834139
AFFX-LysX-3_at 8.75 A 0.559354
AFFX-PheX-5_at 1.15 A 0.987460
AFFX-PheX-M_at 5.38 A 0.868639
AFFX-PheX-3_at 27.41 A 0.327079
AFFX-ThrX-5_at 40.65 A 0.275129
AFFX-ThrX-M_at 10.07 A 0.617401

Total number of rows: 45101

Table truncated, full table size 1285 Kbytes.




Supplementary file Size Download File type/resource
GSM143560.CEL.gz 3.9 Mb (ftp)(http) CEL

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