NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM475575 Query DataSets for GSM475575
Status Public on Sep 24, 2011
Title MB2 (Illumina human -6 V2)
Sample type RNA
 
Source name MDA-MB231Br3 cells xenografted into mouse brain
Organisms Homo sapiens; Mus musculus
Characteristics cell type: Human cancer MDA-MB231Br3 cells xenografted into mouse brain
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from tissues with mirVana RNA Isolation labeling kit (Ambion Inc) according to the manufacturer protocol. RNA quality and integrity were confirmed by ExperionTM Automated Electrophoresis System (BIO-RAD)
Label Biotin
Label protocol Biotin-labeled cRNA samples for hybridization were prepared according to Illumina's recommended sample labeling procedure: 500 ng of total RNA was used for cDNA synthesis, followed by an amplification/labeling step (in vitro transcription) to synthesize biotin-labeled cRNA using the Illumina TotalPrep RNA Amplification kit (Ambion Inc., Austin, TX). cRNA concentrations using spectrophotometer (Nanodrop, ND-1000)
 
Hybridization protocol Labeled, amplified material (750 ng per array) was hybridized to the Illumina Human-6 BeadChip v.2(48K) according to the Manufacturer's instructions (Illumina, Inc., San Diego, CA).
Scan protocol Arrays were scanned with an Illumina Bead array Reader confocal scanner (BeadStation 500GXDW; Illumina, Inc., San Diego, CA) according to the Manufacturer's instructions
Description MDA-MB231Br3 cells xenografted into mouse brain
To export to gene expression data based on unique gene, we used Sample Gene Profile option of Illumina BeadStudio software. The whole 48697 probes on the Human-6 beadChip ver. 2 were used.
Data processing Array data processing were performed on Illumina BeadStudio software. Quantile normalization.
 
Submission date Nov 25, 2009
Last update date Sep 24, 2011
Contact name Sangbae Kim
E-mail(s) sangbkim22@gmail.com
Organization name Baylor Colleage of Medicine
Department HGSC
Street address 1 Baylor plaza
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
 
Platform ID GPL6102
Series (1)
GSE19184 Cross species hybridization of human cancer cells xenografted into different mouse organ sites

Data table header descriptions
ID_REF Illumina_ID
VALUE Normalized signal intensity. The values are log2 transformed.

Data table
ID_REF VALUE
ILMN_1804663 6.4187
ILMN_1840887 6.1908
ILMN_1867201 6.3095
ILMN_1900605 6.1319
ILMN_1651799 10.6153
ILMN_1818166 6.3107
ILMN_1782558 5.9679
ILMN_1827636 8.1934
ILMN_1821792 6.1538
ILMN_1833080 6.1776
ILMN_1895660 6.1279
ILMN_1850244 6.4249
ILMN_1812262 7.6688
ILMN_1712803 9.3016
ILMN_1842171 6.041
ILMN_1873045 6.6785
ILMN_1774757 6.5142
ILMN_1905009 6.4056
ILMN_1867479 6.1231
ILMN_1875979 6.3851

Total number of rows: 46693

Table truncated, full table size 908 Kbytes.




Supplementary data files not provided
Processed data included within Sample table
Processed data are available on Series record

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