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Sample GSM144594 Query DataSets for GSM144594
Status Public on Nov 18, 2006
Title Proxtubules_1_2_8_05
Sample type RNA
 
Source name Early Proximal Tubule
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:7086
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 5559.58 P 0.000070
AFFX-BioB-M_at 7036.58 P 0.000044
AFFX-BioB-3_at 4354.24 P 0.000044
AFFX-BioC-5_at 13258.97 P 0.000044
AFFX-BioC-3_at 9046.24 P 0.000044
AFFX-BioDn-5_at 24984.01 P 0.000044
AFFX-BioDn-3_at 40012.51 P 0.000044
AFFX-CreX-5_at 84352.87 P 0.000044
AFFX-CreX-3_at 96784.48 P 0.000044
AFFX-DapX-5_at 11.87 A 0.814911
AFFX-DapX-M_at 46.41 A 0.804775
AFFX-DapX-3_at 17.58 A 0.868639
AFFX-LysX-5_at 86.63 A 0.514890
AFFX-LysX-M_at 32.88 A 0.814869
AFFX-LysX-3_at 90.54 A 0.440641
AFFX-PheX-5_at 11.37 A 0.852145
AFFX-PheX-M_at 18.00 A 0.814869
AFFX-PheX-3_at 39.35 A 0.617411
AFFX-ThrX-5_at 30.84 A 0.824672
AFFX-ThrX-M_at 66.47 A 0.631562

Total number of rows: 45101

Table truncated, full table size 1290 Kbytes.




Supplementary file Size Download File type/resource
GSM144594.CEL.gz 3.2 Mb (ftp)(http) CEL

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