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Sample GSM2344855 Query DataSets for GSM2344855
Status Public on Jan 31, 2017
Title LN3_SNB+_PN
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN3
disease: Melanoma
snb status: positive
progression status at 5 years follow up: not progressing (PN)
stage after surgery: IIIA
primary tumor classification: T3a
primary tumor localization: Foot
gender: female
age (years): 69
Extracted molecule total RNA
Extraction protocol RNA was extracted with RecoverAll Total Nucleic Acid Isolation Kit (Ambion) according to the protocol provided by the manufacturer.
Label Cy3
Label protocol Total RNA from each sample was labeled according to the manufacturers recommendations.
Hybridization protocol Standard Agilent hybridization protocol
Scan protocol Standard Agilent scanning protocol with Agilent SureScan microarray scanner (G2505C).
Data processing Scanned images were processed with Agilent Feature Extraction v10.7 with default parameters to obtain raw data. Raw data were imported in R and processed using the limma package. After background correction with the normexp method, raw data were normalized with quantile method and log2 transformed.
Submission date Oct 13, 2016
Last update date Jan 31, 2017
Contact name Matteo Dugo
Organization name IRCCS Ospedale San Raffaele
Department Department of Medical Oncology
Street address via Olgettina 60
City Milan
ZIP/Postal code 20132
Country Italy
Platform ID GPL15159
Series (1)
GSE88727 microRNA expression profiles of tumor-positive and tumor-negative sentinel lymph node biopsies from cutaneous melanoma patients

Data table header descriptions
VALUE log2 background-corrected and quantile-normalized data

Data table
A_25_P00010019 5.434467846
A_25_P00010020 5.390252397
A_25_P00010021 5.418327939
A_25_P00010023 5.389949724
A_25_P00010041 5.413701368
A_25_P00010042 5.314638645
A_25_P00010043 5.33341756
A_25_P00010044 5.302862264
A_25_P00010047 7.734823998
A_25_P00010048 6.064400191
A_25_P00010053 11.17012952
A_25_P00010054 8.222672212
A_25_P00010062 5.382162559
A_25_P00010063 5.330832261
A_25_P00010070 14.2328279
A_25_P00010071 12.7330795
A_25_P00010072 11.79131882
A_25_P00010073 9.309741257
A_25_P00010078 9.160935319
A_25_P00010079 7.305588867

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344855_US11103886_253118111110_S01_1_3.txt.gz 3.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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