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Sample GSM256445 Query DataSets for GSM256445
Status Public on Oct 15, 2008
Title Hepatocellular carcinoma (hcc_031)
Sample type RNA
 
Source name hepatocellular carcinoma
Organism Homo sapiens
Characteristics used for prognostic prediction: Yes
survival time (days): 2849
survival status (0: alive or censored, 1: dead) : 1
hepatitis b virus (hbs antigen): NA
hepatitis c virus: NA
alcohol (cumulative intake): <100kg
microvascular invasion: positive
satellite lesions: positive
Treatment protocol na
Growth protocol na
Extracted molecule total RNA
Extraction protocol Using 10µm sections taken from formalin-fixed paraffin-embeded tissue blocks, total RNA was extracted using High Pure Paraffin FFPE kit (Roche).
Label Cy3 and Cy5
Label protocol Refer to the Illumina DASL Assay System Manual
 
Hybridization protocol Refer to the Illumina DASL Assay System Manual. Hybridization was performed for 4 DASL assay oligo pool (DAP)s, DAP1~4, including 1536 probes each on 4 separate microarrays.
Scan protocol Refer to the Illumina DASL Assay System Manual
Description none
Data processing For each probe, Red and Green intensities are computed as average of single bead values. The final signal is the sum of the Red and Green intensities. Data were were then normalized using the cubic spline algorithm for each DAP.
 
Submission date Jan 10, 2008
Last update date Dec 15, 2014
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 GPL5474
Series (4)
GSE10141 Gene Expression in Fixed Tissues and Outcome in Hepatocellular Carcinoma (Training Set, HCC)
GSE10143 Gene Expression in Fixed Tissues and Outcome in Hepatocellular Carcinoma
GSE10186 Integrative Transcriptome Analysis Reveals Common Molecular Subtypes of Human Hepatocellular Carcinoma
Relations
Affiliated with GSM1130259

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

Data table
ID_REF VALUE
DAP1_0003 9571.778092
DAP1_0010 14289.33643
DAP1_0021 1873.875882
DAP1_0023 1659.730719
DAP1_0027 4969.811967
DAP1_0028 1258.094729
DAP1_0030 10228.50229
DAP1_0031 9615.169941
DAP1_0033 1341.875421
DAP1_0036 1833.266764
DAP1_0038 3920.518682
DAP1_0040 25915.91432
DAP1_0041 1157.746568
DAP1_0042 1392.447443
DAP1_0050 16405.63277
DAP1_0051 2175.024045
DAP1_0054 10756.9039
DAP1_0056 24124.64834
DAP1_0061 1896.304275
DAP1_0062 5791.560798

Total number of rows: 6144

Table truncated, full table size 131 Kbytes.




Supplementary file Size Download File type/resource
GSM256445_1478321_R005_C008.txt.gz 254.2 Kb (ftp)(http) TXT
GSM256445_1478330_R005_C008.txt.gz 245.8 Kb (ftp)(http) TXT
GSM256445_1513764029.1_R005_C008.txt.gz 257.1 Kb (ftp)(http) TXT
GSM256445_1513764029.3_R005_C008.txt.gz 252.7 Kb (ftp)(http) TXT
Processed data included within Sample table

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