Summary of Study ST000231
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000186. The data can be accessed directly via it's Project DOI: 10.21228/M87303 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST000231 |
| Study Title | Comprehensive analysis of transcriptome and metabolome in Intrahepatic Cholangiocarcinoma and Hepatocellular Carcinoma (part II) |
| Study Type | tissue type comparison |
| Study Summary | Cholangiocarcinoma tissue, surrounded non-tumor tissue, Hepatocellular Carcinoma tissue, and surrounded non-tumor tissue were compared via metabolomic analysis. |
| Institute | Osaka City University |
| Department | Department of Hepatology |
| Last Name | Murakami |
| First Name | Yoshiki |
| Address | 1-4-3, asahimachi, Abeno-ku, Osaka 545-8585, Osaka Japan |
| m2079633@med.osaka-cu.ac.jp | |
| Phone | 81-6-6645-3811 |
| Submit Date | 2015-07-11 |
| Num Groups | 2 |
| Total Subjects | 9 samples |
| Raw Data Available | No |
| Analysis Type Detail | LC-MS |
| Release Date | 2015-08-03 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000186 |
| Project DOI: | doi: 10.21228/M87303 |
| Project Title: | Comprehensive analysis of transcriptome and metabolome analysis in Intrahepatic Cholangiocarcinoma and Hepatocellular Carcinoma |
| Project Type: | Population Genetics for comparison between cholangiocarcinoma and hepatocellular carcinoma |
| Project Summary: | Intrahepatic cholangiocarcinoma (ICC) and hepatocellular carcinoma (HCC) are liver originated malignant tumors. The prognosis of ICC is generally worse than that of HCC because there is lack of early diagnostic marker for ICC and the carcinogenic mechanism of ICC is not fully understood. So our aim was to perform metabolome and transcriptome analysis to reveal the carcinogenetic mechanism and to detect an early diagnostic marker for ICC Ten ICC and 6 HCC which were resected surgically, were enrolled. miRNA and mRNA expression analysis were performed by microarray on ICC and HCC and their corresponding non-tumor tissues (ICC_NT and HCC_NT). Compound analysis was performed using capillary electrophoresis time-of-flight mass spectrometry (CE-TOFMS). Principle component analysis (PCA) revealed that our four sample groups (ICC, ICC_NT, HCC, and HCC_NT) have 14 compounds, 62 mRNAs and 17 miRNAs with distinct expressive patterns. There were two distinct patterns among the 4 groups; one is tumor and non-tumor, the other is ICC and non-ICC. To clarify the biological significance of individual genes and compounds, we performed pathway analysis. ICC formation was related to RNA synthesis, amino acid synthesis, and glucose-lipid synthesis pathway. ICC was classified by distinct pattern of compounds with high accuracy (84.38%). PCA revealed that several pathways were associated with the development of ICC and distinguished ICC from other diseases. These findings are a promising step towards establishing novel biomarkers that can be clinically applicable. |
| Institute: | Osaka City University |
| Department: | Department of Hepatology |
| Last Name: | Murakami |
| First Name: | Yoshiki |
| Address: | 1-4-3, asahimachi, Abeno-ku, Osaka 545-8585, Osaka Japan |
| Email: | m2079633@med.osaka-cu.ac.jp |
| Phone: | 81-6-6645-3811 |
Subject:
| Subject ID: | SU000250 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Species Group: | Human |
Factors:
Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Tissue Type |
|---|---|---|
| SA010868 | 25 | ICC (Intrahepatic cholangiocarcinoma) |
| SA010869 | 27 | ICC (Intrahepatic cholangiocarcinoma) |
| SA010870 | 29 | ICC (Intrahepatic cholangiocarcinoma) |
| SA010871 | 31 | ICC (Intrahepatic cholangiocarcinoma) |
| SA010872 | 1 | ICC (Intrahepatic cholangiocarcinoma) |
| SA010873 | 26 | ICC-NT (surrounded non tumor of ICC) |
| SA010874 | 28 | ICC-NT (surrounded non tumor of ICC) |
| SA010875 | 30 | ICC-NT (surrounded non tumor of ICC) |
| SA010876 | 32 | ICC-NT (surrounded non tumor of ICC) |
| Showing results 1 to 9 of 9 |
Collection:
| Collection ID: | CO000240 |
| Collection Summary: | - |
| Sample Type: | Liver |
Treatment:
| Treatment ID: | TR000260 |
Sample Preparation:
| Sampleprep ID: | SP000254 |
| Sampleprep Summary: | - |
Combined analysis:
| Analysis ID | AN000345 | AN000346 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | ||
| Chromatography system | ||
| Column | ||
| MS Type | ESI | ESI |
| MS instrument type | TOF | TOF |
| MS instrument name | Agilent 6220 TOF | Agilent 6220 TOF |
| Ion Mode | NEGATIVE | POSITIVE |
| Units | Peak area | Peak area |
Chromatography:
| Chromatography ID: | CH000258 |
MS:
| MS ID: | MS000291 |
| Analysis ID: | AN000345 |
| Instrument Name: | Agilent 6220 TOF |
| Instrument Type: | TOF |
| MS Type: | ESI |
| Ion Mode: | NEGATIVE |
| Tube Lens Voltage: | ANION (NEGATIVE) |
| MS ID: | MS000292 |
| Analysis ID: | AN000346 |
| Instrument Name: | Agilent 6220 TOF |
| Instrument Type: | TOF |
| MS Type: | ESI |
| Ion Mode: | POSITIVE |
| Tube Lens Voltage: | CATION (POSITIVE) |
