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Sample GSM2344845 Query DataSets for GSM2344845
Status Public on Jan 31, 2017
Title LN17_SNB-_N
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN17
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: Trunk
gender: male
age (years): 41
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 5.422113239
A_25_P00010020 5.401380794
A_25_P00010021 5.474007265
A_25_P00010023 5.469099134
A_25_P00010041 5.384983939
A_25_P00010042 5.2614211
A_25_P00010043 5.363582849
A_25_P00010044 5.189938927
A_25_P00010047 7.294309143
A_25_P00010048 5.932339186
A_25_P00010053 11.07852523
A_25_P00010054 7.951325706
A_25_P00010062 5.35363331
A_25_P00010063 5.285041903
A_25_P00010070 14.12120152
A_25_P00010071 12.5459901
A_25_P00010072 11.54976438
A_25_P00010073 8.982706849
A_25_P00010078 9.75286809
A_25_P00010079 7.553829444

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344845_US11103886_253118110465_S01_1_1.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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