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Sample GSM3259701 Query DataSets for GSM3259701
Status Public on Sep 01, 2018
Title US45103089_253949425626_S02_GE1_1100_49K_1_3
Sample type RNA
 
Source name FFPE
Organism Homo sapiens
Characteristics tissue: Tumor Sample, advanced rectal adenocarcinoma
age at surgery: 74
dworak tumor regression grade: 3
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 11.46359355
A_33_P3246448 6.437733005
A_33_P3318220 10.10328121
A_33_P3236322 12.72129931
A_33_P3319925 10.50048005
A_21_P0000509 12.99606208
A_21_P0000744 7.294344886
A_24_P215804 7.890487047
A_23_P110167 13.72240647
A_33_P3211513 10.21959607
A_23_P103349 9.097189961
A_32_P61480 5.552909834
A_33_P3788124 8.003583332
A_33_P3414202 12.42808619
A_33_P3316686 9.411553295
A_33_P3300975 8.027002715
A_33_P3263061 10.87168964
A_33_P3261373 11.81141951
A_24_P278460 8.120859777
A_21_P0013109 7.976392109

Total number of rows: 50599

Table truncated, full table size 1255 Kbytes.




Supplementary file Size Download File type/resource
GSM3259701_US45103089_253949425626_S02_GE1_1100_49K_1_3.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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