Summary of Study ST001875
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 PR001182. The data can be accessed directly via it's Project DOI: 10.21228/M8XD6P This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.
| Study ID | ST001875 |
| Study Title | Metabolomics analysis of multiple samples on AB 5600-Part 2 |
| Study Type | Metabolomics |
| Study Summary | Metabolomics analysis of multiple samples from mouse, trying to annotate the metabolites in them. AB SCIEX 5600+ was used for metabolomics detection. |
| Institute | Dalian Institute Of Chemical Physics |
| Laboratory | Laboratory of High Resolution Separation/Analysis and Metabonomics |
| Last Name | Zheng |
| First Name | Fujian |
| Address | No. 457 Zhongshan Road, Shahekou District, Dalian, Liaoning Province, China |
| zhengfj@dicp.ac.cn | |
| Phone | 18698730176 |
| Submit Date | 2021-06-28 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | wiff |
| Analysis Type Detail | LC-MS |
| Release Date | 2021-07-24 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001182 |
| Project DOI: | doi: 10.21228/M8XD6P |
| Project Title: | Metabolomics analysis of multiple samples |
| Project Summary: | Liquid chromatography–high resolution mass spectrometry (LC-HRMS) is the most popular platform for untargeted metabolomics methods, but annotating LC-HRMS data is a long-standing bottleneck that we are facing since years ago in metabolomics research. A wide variety of methods have been established to deal with the annotation issue. To date, however, there is a scarcity of efficient, systematic, and easy-to-handle tools that are tailored for metabolomics and exposome community. Herein, we developed a user-friendly and powerful stand-alone software, MetEx, to enable implementation of classical peak detection-based annotation and a brand-new annotation method based on targeted extraction algorithms. Especially the newly proposed annotation method of targeted extraction can identify more than 2 times more metabolites than traditional peak detection-based annotation methods because it reduces the loss of metabolite signal in the data preprocessing process. |
| Institute: | Dalian Institute of Chemical Physics |
| Laboratory: | Laboratory of High Resolution Separation/Analysis and Metabonomics |
| Last Name: | Zheng |
| First Name: | Fujian |
| Address: | 457 Zhongshan Road Dalian, China 116023, Dalian, Liaoning, 116021, China |
| Email: | zhengfj@dicp.ac.cn |
| Phone: | 18698730176 |
Subject:
| Subject ID: | SU001952 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Species Group: | Mammals |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Source | MS2 CE |
|---|---|---|---|
| SA174851 | Mouse faeces-15V | Mouse feces | 15V |
| SA174852 | Mouse faeces-30V | Mouse feces | 30V |
| SA174853 | Mouse faeces-45V | Mouse feces | 45V |
| SA174854 | Mouse liver tissue-15V | Mouse liver | 15V |
| SA174855 | Mouse liver tissue-30V | Mouse liver | 30V |
| SA174856 | Mouse liver tissue-45V | Mouse liver | 45V |
| Showing results 1 to 6 of 6 |
Collection:
| Collection ID: | CO001945 |
| Collection Summary: | Faecal samples and liver tissue were collected and immediately stored at -80 °C for further analysis. |
| Sample Type: | Mouse feces and liver |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR001964 |
| Treatment Summary: | No treatment |
Sample Preparation:
| Sampleprep ID: | SP001958 |
| Sampleprep Summary: | Mouse liver tissue: Six- to eight-week-old male C57BL/6 mice were fed a regular standard breeding diet and housed under standard pathogen-free (SPF) conditions. Faecal samples were collected and immediately stored at -80 °C for further analysis. After the mice were sacrificed, liver tissue was sampled, immediately frozen in liquid nitrogen, and then stored at -80 °C. The study was approved by the Animal Ethics Committee of Saiye Biology (ACU20-A027). Mouse liver tissue (20 mg) and 600 μL CH3OH/H2O (8:2, vol/vol) solvent were combined in a centrifuge tube and then homogenized (28 Hz, 60 s and 30 s) in a frozen mixed ball grinding machine (MM400, Retsch Technology, Han, Germany). The mixture was centrifuged for 10 min at 15,000 g and 4 °C, 500 μL of supernatant was transferred to a new centrifuge tube for lyophilization, and the residue was reconstituted with 100 μL of Mix-IS-MeOH.Mouse faeces: A 60 mg sample of mouse faeces and 600 μL CH3OH/H2O (8:2, vol/vol) solvent were combined in a centrifuge tube and then homogenized (28 Hz, 60 s and 30 s) in a frozen mixed ball grinding machine (MM400, Retsch Technology, Han, Germany). The mixture was centrifuged for 10 min at 15,000 g and 4 °C; then, 500 μL of supernatant was transferred to a new centrifuge tube for lyophilization, and the residue was reconstituted with 100 μL of Mix-IS-MeOH. |
Chromatography:
| Chromatography ID: | CH002250 |
| Instrument Name: | Waters Acquity |
| Column Name: | Waters Acquity BEH C8 (100 x 2.1mm,1.7um) |
| Column Temperature: | 50 |
| Flow Rate: | 0.35 mL/min |
| Chromatography Type: | Reversed phase |
Analysis:
| Analysis ID: | AN003037 |
| Analysis Type: | MS |
| Chromatography ID: | CH002250 |
| Num Factors: | 1 |
| Num Metabolites: | 34 |
| Rt Units: | Minutes |
| Units: | blank-substracted abundances |
