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Sample GSM2344840 Query DataSets for GSM2344840
Status Public on Jan 31, 2017
Title LN12_SNB-_N
Sample type RNA
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN12
disease: Melanoma
snb status: negative
progression status at 5 years follow up: not progressing (N)
stage after surgery: IIB
primary tumor classification: T3b
primary tumor localization: Leg
gender: female
age (years): 30
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 5.406009223
A_25_P00010020 5.334876356
A_25_P00010021 5.395748139
A_25_P00010023 5.375339561
A_25_P00010041 5.290777723
A_25_P00010042 5.294756478
A_25_P00010043 5.21008666
A_25_P00010044 5.197256008
A_25_P00010047 7.376497471
A_25_P00010048 6.02957562
A_25_P00010053 11.7401386
A_25_P00010054 8.374360731
A_25_P00010062 5.347620116
A_25_P00010063 5.276152803
A_25_P00010070 13.77462393
A_25_P00010071 12.3323209
A_25_P00010072 11.14528783
A_25_P00010073 8.505993286
A_25_P00010078 9.184163467
A_25_P00010079 7.155454758

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.

Supplementary file Size Download File type/resource
GSM2344840_US11103886_253118110464_S01_1_4.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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