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Sample GSM2344850 Query DataSets for GSM2344850
Status Public on Jan 31, 2017
Title LN23_SNB+_PN
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN23
disease: Melanoma
snb status: positive
progression status at 5 years follow up: progressing (PN)
stage after surgery: IIIB
primary tumor classification: T2b
primary tumor localization: Foot
gender: female
age (years): 76
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 5.386241722
A_25_P00010020 5.315514117
A_25_P00010021 5.395371467
A_25_P00010023 5.36673634
A_25_P00010041 5.345632795
A_25_P00010042 5.181808225
A_25_P00010043 5.271661153
A_25_P00010044 5.109976565
A_25_P00010047 6.029309983
A_25_P00010048 5.536283849
A_25_P00010053 9.436602339
A_25_P00010054 6.41504673
A_25_P00010062 5.328218634
A_25_P00010063 5.229086657
A_25_P00010070 12.3785747
A_25_P00010071 11.05759081
A_25_P00010072 9.840975469
A_25_P00010073 7.114500309
A_25_P00010078 7.572194366
A_25_P00010079 6.110626096

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344850_US11103886_253118110465_S01_2_2.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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