NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM316735 Query DataSets for GSM316735
Status Public on Sep 03, 2008
Title Xenopus laevis Brain, biological replicate 1
Sample type RNA
 
Source name Xenopus laevis, Adult male hindbrain (dorsal tegmental area of the medulla to the end of n.IX-X)
Organism Xenopus laevis
Characteristics Adult male Xenopus laevis
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 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.laevis testis
 
Submission date Aug 29, 2008
Last update date Dec 03, 2008
Contact name Frederic Chain
E-mail(s) chainfj@mcmaster.ca
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
ID_REF
VALUE RMA normalized (log2) using RMA express using "XB+XL perfect match probemask"

Data table
ID_REF VALUE
Xl.1.1.S1_s_at 12.13516747
Xl.10012.1.A1_at 4.025613729
Xl.10032.1.A1_s_at 8.617684373
Xl.10043.1.A1_at 6.418569837
Xl.10043.2.S1_at 4.013908399
Xl.10054.1.S1_at 7.950386135
Xl.10087.1.A1_at 10.76526702
Xl.10104.1.A1_at 6.97253797
Xl.10118.1.S1_at 5.64698811
Xl.1013.1.S1_at 4.013908399
Xl.10142.1.S1_at 6.821298595
Xl.1015.1.S1_at 6.518615627
Xl.10170.1.A1_at 7.507612627
Xl.10191.1.S1_at 7.432198502
Xl.10208.1.S1_at 6.694872562
Xl.10222.1.A1_at 5.028688576
Xl.10227.1.A1_at 8.420986106
Xl.10230.1.A1_at 7.488310179
Xl.10251.1.A1_at 8.835342759
Xl.10287.1.S1_at 10.27392414

Total number of rows: 2143

Table truncated, full table size 59 Kbytes.




Supplementary file Size Download File type/resource
GSM316735.CEL.gz 3.4 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap