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Sample GSM3259707 Query DataSets for GSM3259707
Status Public on Sep 01, 2018
Title US45103089_253949440417_S01_GE1_1100_81K_1_3
Sample type RNA
 
Source name FFPE
Organism Homo sapiens
Characteristics tissue: Tumor Sample, advanced rectal adenocarcinoma
age at surgery: 53
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
E-mail(s) lorenzo.ferrando@edu.unige.it
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
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
A_23_P117082 10.92072258
A_33_P3246448 7.096488295
A_33_P3318220 10.19354996
A_33_P3236322 13.74637295
A_33_P3319925 10.61523417
A_21_P0000509 14.53843469
A_21_P0000744 7.170960288
A_24_P215804 6.490911588
A_23_P110167 12.62278396
A_33_P3211513 10.28135434
A_23_P103349 8.749495339
A_32_P61480 5.676432406
A_33_P3788124 7.739465402
A_33_P3414202 12.72442218
A_33_P3316686 9.59046848
A_33_P3300975 8.130158521
A_33_P3263061 11.08431787
A_33_P3261373 11.46993174
A_24_P278460 7.74306141
A_21_P0013109 7.373473982

Total number of rows: 50599

Table truncated, full table size 1255 Kbytes.




Supplementary file Size Download File type/resource
GSM3259707_US45103089_253949440417_S01_GE1_1100_81K_1_3.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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