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Sample GSM2344841 Query DataSets for GSM2344841
Status Public on Jan 31, 2017
Title LN13_SNB+_PN
Sample type RNA
 
Source name biopsy from sentinel lymph node
Organism Homo sapiens
Characteristics tissue: sentinel lymph node
patient id: LN13
disease: Melanoma
snb status: positive
progression status at 5 years follow up: not progressing (PN)
stage after surgery: IIIA
primary tumor classification: T2b
primary tumor localization: Trunk
gender: male
age (years): 46
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 5.499858576
A_25_P00010020 5.394991377
A_25_P00010021 5.444697194
A_25_P00010023 5.52967812
A_25_P00010041 5.436930973
A_25_P00010042 5.374731795
A_25_P00010043 5.373696849
A_25_P00010044 5.3004507
A_25_P00010047 7.763377242
A_25_P00010048 6.112086086
A_25_P00010053 11.67393317
A_25_P00010054 8.430345409
A_25_P00010062 5.28519233
A_25_P00010063 5.304057966
A_25_P00010070 14.1226791
A_25_P00010071 12.7006489
A_25_P00010072 11.58288191
A_25_P00010073 8.883128406
A_25_P00010078 9.353526874
A_25_P00010079 7.372683323

Total number of rows: 3544

Table truncated, full table size 92 Kbytes.




Supplementary file Size Download File type/resource
GSM2344841_US11103886_253118110464_S01_2_1.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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