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Sample GSM1384700 Query DataSets for GSM1384700
Status Public on Dec 21, 2015
Title liver_patient_15_CCC_rep1 (mRNA)
Sample type RNA
 
Source name liver mRNA CCC tumor part
Organism Homo sapiens
Characteristics patient: patient 15
disease state: CCC
tissue: liver_CCC tumor part
gender: female
age: 50
date of birth: 1941/08/02
hospotal id: 08-092-529
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_29
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 0.0925346415583009
5 -0.116760913283503
6 -0.189499808199871
7 -0.183181864619881
8 -0.184904645656981
9 -0.0444001163718592
10 -0.170592773951942
11 -0.174272512937053
12 1.017860008424
13 -0.13500353272691
14 -0.189495677037148
15 -0.183816658078435
16 -0.189274729345902
17 -0.159138997588453
18 -0.140512199118118
19 -0.144865943527965
20 0.20325839359542
21 -0.186598322099158
22 -0.1427563363598
23 -0.18757256414823

Total number of rows: 58717

Table truncated, full table size 1414 Kbytes.




Supplementary file Size Download File type/resource
GSM1384700_no29.txt.gz 12.6 Mb (ftp)(http) TXT
Processed data included within Sample table

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