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Sample GSM207263 Query DataSets for GSM207263
Status Public on Jul 04, 2007
Title DT_3
Sample type RNA
 
Source name anlage of loop of Henle
Organism Mus musculus
Characteristics gene reported: wild-type
strain: CD-1
Sex: Unknown
developmental stage: E15.5
theiler stage: 23
somite count: NA
developmental landmark: NA
Treatment protocol pool size: approx 50 sections from 5 kidneys
Pooled sample: Yes
Dissection Method: Laser capture microdissection
CD-1 mice are time-mated. Pregnant CD-1 mice are euthanized by standard carbon dioxide asphyxiation. All fetuses are killed by decapitation with a scalpel. Fetal kidneys are dissected from fetuses placed in OCT in a mold, frozen in liquid nitrogen and stored at -80°C. Blocks are sectioned, stained and used for laser capture micro-dissection.
Extracted molecule total RNA
Extraction protocol Potter protocol: 'RNA purification'
Label Biotin
Label protocol Biotin-X-X-NHS (EPICENTRE Biotechnologies)
 
Hybridization protocol Affymetrix standard protocol
Amount labeled target hybridization to array: 5ug
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:8106
Data processing Analysis method: Affymetrix GCOS and Gene Spring and Avadis programs GCOS Tgt value: 1500
 
Submission date Jul 03, 2007
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)
GSE8360 Gene expression profiles of E15.5 cortical collecting duct and anlage of loop of Henle isolated from developing kidney using LCM. (GUDMAP Series ID: 18)
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 2532.15 P 0.000297
AFFX-BioB-M_at 4036.81 P 0.000044
AFFX-BioB-3_at 2558.71 P 0.000044
AFFX-BioC-5_at 2918.90 P 0.000044
AFFX-BioC-3_at 3935.16 P 0.000044
AFFX-BioDn-5_at 17620.63 P 0.000044
AFFX-BioDn-3_at 36383.83 P 0.000044
AFFX-CreX-5_at 91461.46 P 0.000052
AFFX-CreX-3_at 107732.27 P 0.000044
AFFX-DapX-5_at 136.31 A 0.095667
AFFX-DapX-M_at 68.89 A 0.354453
AFFX-DapX-3_at 28.05 A 0.772364
AFFX-LysX-5_at 42.35 A 0.529760
AFFX-LysX-M_at 16.62 A 0.724854
AFFX-LysX-3_at 89.47 P 0.023929
AFFX-PheX-5_at 14.41 A 0.686277
AFFX-PheX-M_at 6.93 A 0.971543
AFFX-PheX-3_at 93.60 A 0.239063
AFFX-ThrX-5_at 22.13 A 0.804734
AFFX-ThrX-M_at 100.60 A 0.239063

Total number of rows: 45101

Table truncated, full table size 1299 Kbytes.




Supplementary file Size Download File type/resource
GSM207263.CEL.gz 3.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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