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Sample GSM499794 Query DataSets for GSM499794
Status Public on Jul 31, 2011
Title VIHCC P_B157
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
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 GSM499148

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

Data table
ID_REF VALUE
ILMN_1343291 47836.82438
ILMN_1651209 456.8501607
ILMN_1651228 40210.98648
ILMN_1651229 2976.477445
ILMN_1651235 1549.69104
ILMN_1651236 7602.878942
ILMN_1651237 10171.88824
ILMN_1651238 624.8612105
ILMN_1651254 13358.55182
ILMN_1651260 195.685063
ILMN_1651262 22101.54243
ILMN_1651268 1264.9345
ILMN_1651278 382.5585358
ILMN_1651282 262.5309384
ILMN_1651285 490.9175206
ILMN_1651286 3344.771805
ILMN_1651292 1502.977784
ILMN_1651303 58.43983503
ILMN_1651309 241.2958672
ILMN_1651315 2431.996921

Total number of rows: 24526

Table truncated, full table size 595 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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