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Sample GSM144614 Query DataSets for GSM144614
Status Public on Nov 18, 2006
Title larrydissectedmesenchymesample2
Sample type RNA
 
Source name metanephric mesenchyme
Organism Mus musculus
Characteristics gene reported: wild-type
strain: CD-1
Sex: unknown
developmental stage: E11.5
theiler stage: 19
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:7106
Data processing Analysis method: Affymetrix GCOS and Gene Spring and Avadis programs GCOS Tgt value: 1500
 
Submission date Nov 15, 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)
GSE6290 Gene expression profiles of components isolated from developing kidney at E11.5, E12.5 & E15.5 using LCM. (GUDMAP Series ID: 10)
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 917.86 P 0.000127
AFFX-BioB-M_at 1448.37 P 0.000044
AFFX-BioB-3_at 772.84 P 0.000127
AFFX-BioC-5_at 2595.64 P 0.000044
AFFX-BioC-3_at 3361.03 P 0.000044
AFFX-BioDn-5_at 5918.43 P 0.000044
AFFX-BioDn-3_at 11728.16 P 0.000044
AFFX-CreX-5_at 20595.98 P 0.000044
AFFX-CreX-3_at 26567.64 P 0.000044
AFFX-DapX-5_at 52.80 A 0.185131
AFFX-DapX-M_at 41.25 A 0.165840
AFFX-DapX-3_at 5.23 A 0.883928
AFFX-LysX-5_at 2.42 A 0.883908
AFFX-LysX-M_at 17.42 A 0.772383
AFFX-LysX-3_at 4.21 A 0.760937
AFFX-PheX-5_at 4.44 A 0.971543
AFFX-PheX-M_at 7.65 A 0.794370
AFFX-PheX-3_at 63.56 A 0.239063
AFFX-ThrX-5_at 8.08 A 0.686277
AFFX-ThrX-M_at 5.51 A 0.783476

Total number of rows: 45101

Table truncated, full table size 1286 Kbytes.




Supplementary file Size Download File type/resource
GSM144614.CEL.gz 3.6 Mb (ftp)(http) CEL

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