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Sample GSM2344842 Query DataSets for GSM2344842
Status Public on Jan 31, 2017
Title LN14_SNB+_PN
Sample type RNA
 
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN14
disease: Melanoma
snb status: positive
progression status at 5 years follow up: not progressing (PN)
stage after surgery: IIIA
primary tumor classification: T3a
primary tumor localization: Leg
gender: female
age (years): 74
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 5.843840351
A_25_P00010020 5.417336365
A_25_P00010021 5.543850265
A_25_P00010023 5.435231921
A_25_P00010041 5.341136052
A_25_P00010042 5.312680625
A_25_P00010043 5.216875617
A_25_P00010044 5.184403699
A_25_P00010047 6.894899822
A_25_P00010048 5.723527679
A_25_P00010053 11.11564423
A_25_P00010054 7.65364384
A_25_P00010062 5.329910744
A_25_P00010063 5.304534989
A_25_P00010070 13.55937865
A_25_P00010071 11.79417956
A_25_P00010072 10.99166208
A_25_P00010073 8.124960231
A_25_P00010078 8.831230706
A_25_P00010079 6.88478872

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.




Supplementary file Size Download File type/resource
GSM2344842_US11103886_253118110464_S01_2_2.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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