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Sample GSM2344839 Query DataSets for GSM2344839
Status Public on Jan 31, 2017
Title LN11_SNB-_N
Sample type RNA
 
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN11
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: Leg
gender: male
age (years): 57
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
E-mail(s) dugo.matteo@hsr.it
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
ID_REF
VALUE log2 background-corrected and quantile-normalized data

Data table
ID_REF VALUE
A_25_P00010019 5.457277323
A_25_P00010020 5.336997013
A_25_P00010021 5.504567002
A_25_P00010023 5.403478844
A_25_P00010041 5.267657846
A_25_P00010042 5.212456629
A_25_P00010043 5.222114603
A_25_P00010044 5.192983942
A_25_P00010047 5.607273301
A_25_P00010048 5.466412986
A_25_P00010053 7.382500056
A_25_P00010054 5.734104689
A_25_P00010062 5.252954164
A_25_P00010063 5.272490722
A_25_P00010070 10.34184823
A_25_P00010071 9.382866111
A_25_P00010072 7.740014942
A_25_P00010073 6.098167646
A_25_P00010078 7.240058877
A_25_P00010079 5.884586818

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.




Supplementary file Size Download File type/resource
GSM2344839_US11103886_253118110464_S01_1_3.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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