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Sample GSM2344848 Query DataSets for GSM2344848
Status Public on Jan 31, 2017
Title LN21_SNB+_PN
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN21
disease: Melanoma
snb status: positive
progression status at 5 years follow up: progressing (PN)
stage after surgery: IIIC
primary tumor classification: T3b
primary tumor localization: Leg
gender: male
age (years): 66
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 5.495261548
A_25_P00010020 5.31309049
A_25_P00010021 5.429030318
A_25_P00010023 5.441330577
A_25_P00010041 5.423942452
A_25_P00010042 5.342997566
A_25_P00010043 5.235575549
A_25_P00010044 5.154711757
A_25_P00010047 6.655108899
A_25_P00010048 5.663011017
A_25_P00010053 10.477706
A_25_P00010054 7.264135521
A_25_P00010062 5.33546669
A_25_P00010063 5.321714174
A_25_P00010070 13.71818593
A_25_P00010071 11.76542214
A_25_P00010072 10.82753744
A_25_P00010073 7.916103751
A_25_P00010078 8.663755891
A_25_P00010079 6.660599968

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344848_US11103886_253118110465_S01_1_4.txt.gz 3.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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