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Sample GSM157088 Query DataSets for GSM157088
Status Public on Mar 16, 2007
Title Dicer Knock-Out FT3175
Sample type RNA
 
Source name Mouse mature oocyte
Organism Mus musculus
Characteristics Dicer Knock-out
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to manufacturer's instructions
Label digoxigenin
Label protocol Digoxigenin labeled cRNA was prepared according to Applied Biosystems nanoamp RT-IVT protocol
 
Hybridization protocol Hybridization was performed according to Applied Biosystems Chemiluminescence Detection Kit Protocol (PN 4339627) using 10 ug fragmented cRNA
Scan protocol Image was captured using CCD camera came with AB1700 Microarray Analyzer
Description Gene expression data from single cell (mouse oocyte) using Applied Biosystems AB1700 Whole Genome Microarray
Data processing Quantile normalization was performed separately for knockout and wild-type samples. The normalization was performed using ABarray bioconductor package
 
Submission date Jan 19, 2007
Last update date Mar 15, 2007
Contact name Fuchou Tang
Organization name University of Cambridge
Department Wellcome Trust/Cancer Research UK Gurdon Institute
Street address Tennis Court Road
City Cambridge
State/province Cambridgeshire
ZIP/Postal code CB2 1QN
Country United Kingdom
 
Platform ID GPL2995
Series (1)
GSE6806 Maternal MicroRNAs are Essential for Mouse Zygotic Development

Data table header descriptions
ID_REF
VALUE Quantile normalized signal intensity with flagged values removed
S/N Signal-to-noise ratio. Used for probe detectability. A probe with S/N >=3 is considered detected, otherwise, it is not detected
FLAG Quantification error code. A FLAG > 5000 indicates quantification error. The signal intensity of that probe is usually considered as missing value, and is imputed using averaged value from replicate samples for that probe
UNF_VALUE Quantile normalized signal intensity with the flagged intensity value substituted by imputation using the averaged intensity of the replicate samples within the same genotype for that probe

Data table
ID_REF VALUE S/N FLAG UNF_VALUE
424928 242.47 2.31 0 242.47
318330 223.4549999 -0.18 1 223.4549999
898389 94.31166667 0.45 1 94.31166667
849630 379.6708334 1.43 0 379.6708334
820869 174.825 -0.18 1 174.825
751405 170.2925 0.47 1 170.2925
302796 790.2500001 4.83 0 790.2500001
659682 109.9108333 1.34 0 109.9108333
770746 92.84666666 0.91 1 92.84666666
492302 110.0166667 -0.29 1 110.0166667
775064 144.835 -1.05 1 144.835
630383 264.8908333 0.18 1 264.8908333
667570 4218.286679 39.13 64 4218.286679
659229 18123.79504 56 0 18123.79504
653577 452.2383333 1.74 0 452.2383333
350444 210.1 -0.43 1 210.1
461921 482.8949999 2.39 0 482.8949999
885783 149.6233334 -0.24 1 149.6233334
583911 269.145 0.8 1 269.145
389352 176.1066666 -2.66 1 176.1066666

Total number of rows: 33012

Table truncated, full table size 1186 Kbytes.




Supplementary file Size Download File type/resource
GSM157088.txt.gz 870.8 Kb (ftp)(http) TXT

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