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Sample GSM1146550 Query DataSets for GSM1146550
Status Public on May 23, 2013
Title tumoral sample 83
Sample type RNA
 
Source name sample of human liver from resection and transplantation
Organism Homo sapiens
Characteristics patient id: #39
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 Cy5
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_83_10268_1_2
raw data file: US82400123_253949410268_S01_GE2_107_Sep09_1_2.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 -0.483341
14953 0.192887
54719 -0.464603
31656 0.070659
56021 -0.056481
26764 -0.373822
36925 0.258714
12501 -0.727292
54903 0.042352
30906 -0.687387
3011 0.063545
62818 0.027770
27086 0.071535
12508 0.319694
30742 0.003487
27092 -0.098715
25934 0.195576
2027 0.262221
27257 -1.399514
61 -0.465496

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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