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Sample GSM2344851 Query DataSets for GSM2344851
Status Public on Jan 31, 2017
Title LN24_SNB+_PN
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN24
disease: Melanoma
snb status: positive
progression status at 5 years follow up: progressing (PN)
stage after surgery: IIIC
primary tumor classification: T2b
primary tumor localization: Trunk
gender: female
age (years): 58
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 5.548598931
A_25_P00010020 5.4045718
A_25_P00010021 5.530295704
A_25_P00010023 5.589751911
A_25_P00010041 5.531694404
A_25_P00010042 5.398050075
A_25_P00010043 5.25281087
A_25_P00010044 5.252604053
A_25_P00010047 7.715943341
A_25_P00010048 6.003506015
A_25_P00010053 11.4528584
A_25_P00010054 8.198452453
A_25_P00010062 5.417566948
A_25_P00010063 5.345570914
A_25_P00010070 13.80734889
A_25_P00010071 12.45759633
A_25_P00010072 11.25421098
A_25_P00010073 8.668669988
A_25_P00010078 10.51369285
A_25_P00010079 8.374671467

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344851_US11103886_253118110465_S01_2_3.txt.gz 3.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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