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Sample GSM2344849 Query DataSets for GSM2344849
Status Public on Jan 31, 2017
Title LN22_SNB-_N
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN22
disease: Melanoma
snb status: negative
progression status at 5 years follow up: not progressing (N)
stage after surgery: IB
primary tumor classification: T1b
primary tumor localization: Foot
gender: female
age (years): 62
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 5.437274109
A_25_P00010020 5.437988418
A_25_P00010021 5.577686537
A_25_P00010023 5.455637897
A_25_P00010041 5.406408651
A_25_P00010042 5.259382206
A_25_P00010043 5.343039294
A_25_P00010044 5.277118115
A_25_P00010047 7.010827188
A_25_P00010048 5.814964442
A_25_P00010053 11.04154019
A_25_P00010054 7.82369282
A_25_P00010062 5.295277614
A_25_P00010063 5.293125055
A_25_P00010070 13.30161815
A_25_P00010071 11.69152042
A_25_P00010072 10.85285032
A_25_P00010073 8.143001517
A_25_P00010078 9.341278033
A_25_P00010079 7.27324424

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344849_US11103886_253118110465_S01_2_1.txt.gz 3.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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