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Sample GSM2344838 Query DataSets for GSM2344838
Status Public on Jan 31, 2017
Title LN10_SNB-_N
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN10
disease: Melanoma
snb status: negative
progression status at 5 years follow up: not progressing (N)
stage after surgery: IB
primary tumor classification: T2b
primary tumor localization: Foot
gender: female
age (years): 51
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 5.447901552
A_25_P00010020 5.323747419
A_25_P00010021 5.398071559
A_25_P00010023 5.372645895
A_25_P00010041 5.383193699
A_25_P00010042 5.349102991
A_25_P00010043 5.290344247
A_25_P00010044 5.164217514
A_25_P00010047 7.463217434
A_25_P00010048 5.966886074
A_25_P00010053 11.77804138
A_25_P00010054 8.55599419
A_25_P00010062 5.372840314
A_25_P00010063 5.272183929
A_25_P00010070 13.66272764
A_25_P00010071 12.18570524
A_25_P00010072 11.10623241
A_25_P00010073 8.532526914
A_25_P00010078 9.621723283
A_25_P00010079 7.538687181

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344838_US11103886_253118110464_S01_1_2.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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