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Sample GSM316731 Query DataSets for GSM316731
Status Public on Sep 03, 2008
Title Xenopus borealis Brain, biological rep 3
Sample type RNA
Source name Xenopus borealis male Adult hindbrain (dorsal tegmental area of the medulla to the end of n.IX-X)
Organism Xenopus borealis
Characteristics Adult male Xenopus borealis (Kenya)
Treatment protocol Animal was immersed in MS222 and tissue was immediately extracted
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TRIzol® Reagent (Invitrogen Life Technologies) according to the manufacturer’s protocol and purified with RNeasy Mini Kit (Qiagen).
Label biotin
Label protocol Two micrograms of total RNA was used to prepare biotin labeled cRNA probes following the manufacturer’s (Affymetrix) protocol.
Hybridization protocol Hybridization to Affymetrix Xenopus laevis Genome expression array followed the manufacturer's (Affymetrix) protocol.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
Description 1 of 3 biological replicates of gene expression data from adult male brain
Data processing Data were RMA normalized using RMA Express and a probemask (based on perfect match probes for X.laevis and X.borealis).
Normalization of 3 biological replicates were performed with 3 biological replicates of X.borealis testis
Submission date Aug 29, 2008
Last update date Dec 03, 2008
Contact name Frederic Chain
Organization name McMaster University
Department Biology
Lab LSB 324
Street address 1280 Main Street West
City Hamilton
State/province Ontario
ZIP/Postal code L8S4K1
Country Canada
Platform ID GPL1318
Series (1)
GSE12625 Expression data for a study on cross-species hybridization on single-species microarrays

Data table header descriptions
VALUE RMA normalized (log2) using RMA express using "XB+XL perfect match probemask"

Data table
Xl.1.1.S1_s_at 12.42015976
Xl.10012.1.A1_at 3.295293531
Xl.10032.1.A1_s_at 7.399730517
Xl.10043.1.A1_at 6.473634226
Xl.10043.2.S1_at 3.913460459
Xl.10054.1.S1_at 8.851294258
Xl.10087.1.A1_at 10.44352186
Xl.10104.1.A1_at 6.917966628
Xl.10118.1.S1_at 5.557967889
Xl.1013.1.S1_at 3.656936777
Xl.10142.1.S1_at 7.782074018
Xl.1015.1.S1_at 6.094759121
Xl.10170.1.A1_at 6.276930433
Xl.10191.1.S1_at 6.714179413
Xl.10208.1.S1_at 8.203510276
Xl.10222.1.A1_at 4.254477492
Xl.10227.1.A1_at 8.806898066
Xl.10230.1.A1_at 7.378871281
Xl.10251.1.A1_at 9.068419542
Xl.10287.1.S1_at 9.512394455

Total number of rows: 2143

Table truncated, full table size 59 Kbytes.

Supplementary file Size Download File type/resource
GSM316731.CEL.gz 3.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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