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Sample GSM499815 Query DataSets for GSM499815
Status Public on Jul 31, 2011
Title VIHCC P_M225
Sample type RNA
 
Source name Human hepatocellular carcinoma
Organism Homo sapiens
Characteristics tissue: hepatocellular carcinoma
vascular invasion: Yes
Extracted molecule total RNA
Extraction protocol Using formalin-fixed, paraffin-embedded HCC tissues, total RNA was extracted using TRIzol (Invitrogen).
Label Cy5
Label protocol Refer to the Illumina beadarray Assay System Manual
 
Hybridization protocol Refer to the Illumina beadarray Assay System Manual
Scan protocol Refer to the Illumina beadarray Assay System Manual
Description none
Data processing For each probe, replicate mesurements were averaged after removing outliers. After subtracting background signal intensities and applying a floor value of 0.01 was assigned to negative values, data were normalized using the cubic spline algorithm implemented in GenePattern IlluminaNormalizer module.
 
Submission date Jan 22, 2010
Last update date Jul 31, 2011
Contact name Yujin Hoshida
E-mail(s) Yujin.Hoshida@UTSouthwestern.edu
Organization name University of Texas Southwestern Medical Center
Street address 5323 Harry Hines Blvd
City Dallas
State/province TX
ZIP/Postal code 75390
Country USA
 
Platform ID GPL8432
Series (2)
GSE20017 Gene Signature to Identify Vascular Invasion in Hepatocellular Carcinoma
GSE20238 Gene Signature to Identify Vascular Invasion in Human Hepatocellular Carcinoma
Relations
Reanalysis of GSM499175

Data table header descriptions
ID_REF
VALUE Normalized signal intensities by GenePattern IlluminaNormalizer module

Data table
ID_REF VALUE
ILMN_1343291 40499.39142
ILMN_1651209 229.8186832
ILMN_1651228 35561.6736
ILMN_1651229 3933.349915
ILMN_1651235 813.1460913
ILMN_1651236 3360.705357
ILMN_1651237 12650.85811
ILMN_1651238 780.3615749
ILMN_1651254 14321.75476
ILMN_1651260 96.9718758
ILMN_1651262 18360.35674
ILMN_1651268 1560.661213
ILMN_1651278 622.5691182
ILMN_1651282 464.9971052
ILMN_1651285 687.2683434
ILMN_1651286 2980.427497
ILMN_1651292 619.9411708
ILMN_1651303 81.21351878
ILMN_1651309 202.3720454
ILMN_1651315 3233.205808

Total number of rows: 24526

Table truncated, full table size 596 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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