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Sample GSM2344837 Query DataSets for GSM2344837
Status Public on Jan 31, 2017
Title LN9_SNB+_PN
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN9
disease: Melanoma
snb status: positive
progression status at 5 years follow up: not progressing (PN)
stage after surgery: IIIB
primary tumor classification: T3b
primary tumor localization: Leg
gender: female
age (years): 52
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 5.400445891
A_25_P00010020 5.435236088
A_25_P00010021 5.434059114
A_25_P00010023 5.371287876
A_25_P00010041 5.356539178
A_25_P00010042 5.300849604
A_25_P00010043 5.345152357
A_25_P00010044 5.202139363
A_25_P00010047 7.4719499
A_25_P00010048 5.988904104
A_25_P00010053 11.41592577
A_25_P00010054 8.263797734
A_25_P00010062 5.284513237
A_25_P00010063 5.217457303
A_25_P00010070 14.27532205
A_25_P00010071 12.73279329
A_25_P00010072 11.7370117
A_25_P00010073 8.968862924
A_25_P00010078 9.089608499
A_25_P00010079 6.932191241

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344837_US11103886_253118110464_S01_1_1.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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