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Sample GSM1146645 Query DataSets for GSM1146645
Status Public on May 23, 2013
Title tumoral sample 59
Sample type RNA
 
Source name sample of human liver from resection and transplantation
Organism Homo sapiens
Characteristics patient id: #27
tissue: liver
tissue subtype: tumoral
Extracted molecule total RNA
Extraction protocol liver from human biospies and transplantation
Total RNA was extracted using Mirvana extraction kit following manufacturer protocol
Label Cy3
Label protocol labelling protocol was agilent protocol 'G4140-90050_GeneExpression_Two_Color_v6.5-mai 2010' and the labelling was pseudo mono color (1/2 of the sample with Cy3 and 1/2 of the sample with Cy5)
 
Hybridization protocol Oligoarray control targets and hybridization buffer (Agilent In Situ Hybridization Kit Plus) were added, and samples were applied to microarrays enclosed in Agilent SureHyb-enabled hybridization chambers. After hybridization, slides were washed sequential
Scan protocol Scanner Agilent G2565CA Feature extraction 10.7
Description T_59_10294_1_3
raw data file: US82400123_253949410294_S01_GE2_107_Sep09_1_3.txt
Data processing Feature extraction 10.7 with protocol GE_107_sep09 and grid 039494_G2_D_F_20120628. Both positive and negative control probes were excluded from data normalization and data was filtered by the average of the median of the samples (79.1490322580645). The features which at least 50% of the samples have values above the cut were included (resulting in 28,782 data rows in the sample data table).
 
Submission date May 22, 2013
Last update date Apr 23, 2018
Contact name Boris HALGAND
E-mail(s) boris.halgand@univ-nantes.fr
Organization name INSERM
Street address 1, rue Gaston Veil
City Nantes
ZIP/Postal code 44000
Country France
 
Platform ID GPL16699
Series (1)
GSE47197 Human liver infected by HBV: tumoral part vs non tumoral part of the liver
Relations
Reanalyzed by GSE113533

Data table header descriptions
ID_REF
VALUE normalized by LOWESS method

Data table
ID_REF VALUE
22881 -0.649643
14953 0.505622
54719 -0.395770
31656 -0.162326
56021 -0.482282
26764 0.931800
36925 0.832908
12501 0.215308
54903 -1.662262
30906 -0.430637
3011 0.144356
62818 -0.590462
27086 0.096993
12508 0.132293
30742 -0.947841
27092 -0.258302
25934 -0.043022
2027 0.128923
27257 -0.373975
61 -0.658793

Total number of rows: 28782

Table truncated, full table size 430 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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