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Sample GSM543578 Query DataSets for GSM543578
Status Public on Aug 02, 2011
Title human DLBCL tumoral sample, miRNA expr, case 28
Sample type RNA
 
Source name human DLBCL tumoral sample
Organism Homo sapiens
Characteristics case id: 28
tissue: tumoral sample
cell type: diffuse large B cell lymphoma (DLBCL)
status os (0 alive; 1 death): 0
status pfs (0: no event; 1:event:relapse/progression/death): 0
time os (months): 47
time pfs (months): 47
Treatment protocol NA
Growth protocol NA
Extracted molecule total RNA
Extraction protocol total RNA was isolated by Trizol reagent (Invitrogen, Carlsbad, CA, USA). RNA quality was checked using total RNA (small fraction chip) with the Agilent 2100 Bioanalyzer (Agilent Technologies Inc., Santa Clara, CA) and by 1% agarose electrophoresis, following the standard procedure.
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
 
Hybridization protocol 100 ng of total RNA were hybridized on an Agilent 8x15K Human miRNA one-color microarray for detecting 470 human and 64 viral miRNAs, following the manufacturer’s instructions (Agilent Technologies)
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1x44k array slides (Scan Area 61x21.6 mm, Scan resolution 10um, Dye channel is set to Green and Green PMT is set to 100%).
Description US22502553_251643611739_S01_miRNA-v1_95_May07_2_1.txt
Data processing Between-array median normalization was carried out to render miRNA expression datasets comparable using Genespring GX9 software.
 
Submission date May 14, 2010
Last update date Aug 02, 2011
Contact name Santiago Montes-Moreno
E-mail(s) smontes@cnio.es
Organization name CNIO
Department Molecular Pathology
Lab Lymphoma Group
Street address C/ Melchor Fernández Almagro, 3
City Madrid
State/province Madrid
ZIP/Postal code 28029
Country Spain
 
Platform ID GPL9081
Series (3)
GSE21847 miRNA profiling of 29 cases of diffuse large B cell lymphoma
GSE21848 miRNA profiling of 36 cases of diffuse large B cell lymphoma
GSE21849 Gene and microRNA expression data of diffuse large B cell lymphoma from human diagnostic frozen samples

Data table header descriptions
ID_REF
VALUE median-narmalized expression value

Data table
ID_REF VALUE
DarkCorner -6.0099974
NC1_00000197 -6.0099974
NC1_00000215 -5.40151
NC2_00079215 -6.0099974
NC2_00092197 -6.0099974
NC2_00106057 -4.4451656
NC2_00122731 -5.575959
NegativeControl -6.0099974
SCorner3 -6.0099974
dmr_285 -6.0099974
dmr_3 -6.0099974
dmr_308 -6.0099974
dmr_316 -6.0099974
dmr_31a -6.0099974
dmr_6 -6.0099974
ebv-miR-BART1-3p -6.0099974
ebv-miR-BART1-5p -6.0099974
ebv-miR-BART10 -6.0099974
ebv-miR-BART11-3p -6.0099974
ebv-miR-BART11-5p -6.0099974

Total number of rows: 556

Table truncated, full table size 12 Kbytes.




Supplementary file Size Download File type/resource
GSM543578_US22502553_251643611739_S01_miRNA-v1_95_May07_2_1.txt.gz 1.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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