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Sample GSM3259706 Query DataSets for GSM3259706
Status Public on Sep 01, 2018
Title US45103089_253949440417_S01_GE1_1100_67K_2_1
Sample type RNA
Source name FFPE
Organism Homo sapiens
Characteristics tissue: Tumor Sample, advanced rectal adenocarcinoma
age at surgery: 55
dworak tumor regression grade: 1
gender: F
Treatment protocol chemoradiation therapy, a combination of capecitabine (825 mg/m2) and radiations (50.4 Gy) provided in 28 fractions in 12 weeks. Clinical staging was accomplished using two physical examinations, endoscopic ultrasound (EUS) and nuclear magnetic resonance (NMR) before the administration of the neoadjuvant treatment. After 8 weeks from the completion of neoadjuvant therapy, surgery was performed
Extracted molecule total RNA
Extraction protocol RNA extraction
Label Cy3
Label protocol Agilent SureTag Labeling kit (Agilent Technologies, Palo Alto, CA, USA), enzymatically label 1.8 µg of amplified cDNA with Cyanine 3-dUTP for 2 hours at 37°C
Hybridization protocol Agilent SurePrint G3 Human Gene Expression v2 8x60K Microarray.
Scan protocol Slides were scanned (Agilent SureScan Microarray Scanner) immediately after washing procedure according to the precedure outlined in Agilent one-color Microarray-based gene expression analysis manual.
Description Gene Expression after capecitabine and radiotherapy cycle of 8 weeks
Data processing The scanned images were analyzed with Feature Extraction Software v10.7 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
Submission date Jul 06, 2018
Last update date Sep 01, 2018
Contact name Lorenzo Ferrando
Organization name IRCCS - Ospedale Policlinico San Martino
Department Department of Internal Medicine
Lab Translational Laboratory
Street address Viale Benedetto XV
City Genova
ZIP/Postal code 16132
Country Italy
Platform ID GPL17077
Series (1)
GSE116742 Analysis of lncRNAs for the characterization of the response to neoadjuvant chemoradiotherapy

Data table header descriptions
VALUE Normalized signal intensity

Data table
A_23_P117082 11.19119809
A_33_P3246448 8.770344446
A_33_P3318220 10.80259981
A_33_P3236322 14.0540647
A_33_P3319925 8.23003631
A_21_P0000509 15.35756644
A_21_P0000744 7.363725714
A_24_P215804 6.320358523
A_23_P110167 10.75794861
A_33_P3211513 9.546225619
A_23_P103349 8.49948684
A_32_P61480 5.9731618
A_33_P3788124 7.244633335
A_33_P3414202 12.9916789
A_33_P3316686 8.37939268
A_33_P3300975 9.073123912
A_33_P3263061 9.338818011
A_33_P3261373 11.40976392
A_24_P278460 8.906449616
A_21_P0013109 7.771126079

Total number of rows: 50599

Table truncated, full table size 1254 Kbytes.

Supplementary file Size Download File type/resource
GSM3259706_US45103089_253949440417_S01_GE1_1100_67K_2_1.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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