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Sample GSM1384702 Query DataSets for GSM1384702
Status Public on Dec 21, 2015
Title liver_patient_16_CCC_rep1 (mRNA)
Sample type RNA
 
Source name liver mRNA CCC tumor part
Organism Homo sapiens
Characteristics patient: patient 16
disease state: CCC
tissue: liver_CCC tumor part
gender: male
age: 34
date of birth: 1978/07/30
hospotal id: 08-717-775
Treatment protocol Surgically resected hepatocellular carcinoma (HCC) samples and surrounded non-tumor samples, and cholangiocarcinoma (CCC) samples and surrounded non-tumor samples
Extracted molecule total RNA
Extraction protocol RNA was prepared using the mirVana miRNA isolation kit (Life Technologies, CA, USA) following the manufacturer's recommendations. RNA was quantified using a NanoDrop-2000 spectrophotometer and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
Label Cy3
Label protocol For miRNA microarray, 100 ng of RNA was labeled and hybridized using the Human microRNA Microarray Kit (Rel 14.0) (Agilent Technologies, CA, USA) according to manufacturer’s protocol for use with Agilent microRNA microarrays Version 1.0.For mRNA micaroarray, 100 ng of RNA was labeled and hybridized using the SurePrint G3 Human GE microarray kit (G4851B) (Agilent Technologies, CA, USA) according to manufacturer’s protocol for use with Agilent microarrays.
 
Hybridization protocol For miRNA microarray, 100 ng of RNA was labeled and hybridized using the Human microRNA Microarray Kit (Rel 14.0) (Agilent Technologies, CA, USA) according to manufacturer’s protocol for use with Agilent microRNA microarrays Version 1.0.For mRNA micaroarray, 100 ng of RNA was labeled and hybridized using the SurePrint G3 Human GE microarray kit (G4851B) (Agilent Technologies, CA, USA) according to manufacturer’s protocol for use with Agilent microarrays.
Scan protocol For miRNA microarray, hybridization signals were detected with Agilent DNA microarray scanner G2539B and the scanned images were analyzed using Agilent feature extraction software (v10.10.1.1). For mRNA microarray, hybridization signals were detected with Agilent DNA microarray scanner G2539A and the scanned images were analyzed using Agilent feature extraction software (v10.10.1.1).
Description CCC
mRNA_31
Data processing For miRNA and mRNA microarray, gProcessedSignal was extracted and normalized so as to have zero mean and variance of 1.
 
Submission date May 12, 2014
Last update date Apr 23, 2018
Contact name Y-H. Taguchi
E-mail(s) tag@granular.com
Phone +81-3-3817-1791
Organization name Chuo University
Department Physics
Street address 1-13-27 Kasuga,Bukyo-ku
City Tokyo
State/province Non-US/Canada
ZIP/Postal code 112-8551
Country Japan
 
Platform ID GPL16699
Series (1)
GSE57555 mRNA/microRNA expression profiles of HCC or CCC patients' liver, together with those of non-tumor part tissues
Relations
Reanalyzed by GSE113533

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
4 0.0351838837798303
5 -0.11159816258373
6 -0.111764804491491
7 -0.108153754097195
8 -0.111460857930738
9 0.015611917577644
10 -0.0733085153878422
11 -0.111325163729279
12 0.0449994645294933
13 -0.0617019344721786
14 -0.111755143568877
15 -0.111755411257872
16 -0.111755473341471
17 -0.0701840875564176
18 -0.0836304273398255
19 -0.0851071237035331
20 0.141943376355305
21 -0.110511696626026
22 -0.0897613539411446
23 -0.110518582396882

Total number of rows: 58717

Table truncated, full table size 1428 Kbytes.




Supplementary file Size Download File type/resource
GSM1384702_no31.txt.gz 12.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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