GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM1298782 Query DataSets for GSM1298782
Status Public on Dec 28, 2013
Title neural border, stage 14, biological replicate 2
Sample type RNA
Source name Xenopus laevis neural border, stage 14
Organism Xenopus laevis
Characteristics tissue: neural border
Stage: 14
Treatment protocol Neural border, neural plate, anterior neural fold, and animal cap explants were microdissected and incubated with trizol on ice for 5 minutes.
Growth protocol Xenopus laevis embryos were grown at 15°C in 1/3 MMR until the desired stage
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using the standard trizol protocol and eppendorf phase-lock gel tubes, followed by proteinase K digestion, and Qiagen Rneasy columns
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 10 ug total RNA
Hybridization protocol Hybridization was completed using the standard affymetrix protocol
Scan protocol Scanning was completed using an Affymetrix Genechip scanner 3000 7G
Description NB14.5
Data processing The data was analysed with R (v.2.14.2) and the Bioconductor Biobase (v.2.14.0) affy library (v.1.32.1 package) with default settings.
Submission date Dec 27, 2013
Last update date Dec 28, 2013
Contact name Anne-Helene Monsoro-Burq
Organization name Institut Curie
Department Université Paris Sud
Lab U1021 - UMR3347
Street address Bat 110
City Orsay
ZIP/Postal code 91405
Country France
Platform ID GPL1318
Series (2)
GSE53678 Pax3 and Zic1 trigger the early neural crest gene regulatory network by the direct activation of multiple key neural crest specifiers [Xenopus_laevis]
GSE53679 Pax3 and Zic1 trigger the early neural crest gene regulatory network by the direct activation of multiple key neural crest specifiers

Data table header descriptions
VALUE log2 RMA signal intensity

Data table
AFFX-BioB-3_at 7.485503029
AFFX-BioB-5_at 7.747494791
AFFX-BioB-M_at 8.014566215
AFFX-BioC-3_at 9.107797681
AFFX-BioC-5_at 8.90719246
AFFX-BioDn-3_at 10.64304031
AFFX-BioDn-5_at 10.14392499
AFFX-CreX-3_at 13.16425615
AFFX-CreX-5_at 12.42429848
AFFX-DapX-3_at 11.46190796
AFFX-DapX-5_at 9.762837165
AFFX-DapX-M_at 10.74960701
AFFX-LysX-3_at 8.709908606
AFFX-LysX-5_at 7.348930277
AFFX-LysX-M_at 8.327537038
AFFX-PheX-3_at 8.950708399
AFFX-PheX-5_at 8.126828205
AFFX-PheX-M_at 8.849489117
AFFX-r2-Bs-dap-3_at 10.55930827
AFFX-r2-Bs-dap-5_at 9.883468775

Total number of rows: 15611

Table truncated, full table size 435 Kbytes.

Supplementary file Size Download File type/resource
GSM1298782_signature-5.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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