Summary of Study ST003304
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 PR002054. The data can be accessed directly via it's Project DOI: 10.21228/M83Z6R 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 | ST003304 |
| Study Title | PyINETA: Open-source platform for INADEQUATE-JRES integration in NMR metabolomics |
| Study Summary | This study developed a new data analysis tool for metabolomics to integrate information of NMR experiments INADEQUATE and JRES. This deposition is for samples used for the validation of this new tool. Three mice were fed with a 13C-labeled diet and the distribution of 13C-labeled metabolites was examined using INADEQUATE and JRES. |
| Institute | University of Georgia |
| Last Name | Mario |
| First Name | Uchimiya |
| Address | 315 Riverbend Rd, Athens, GA 30602 |
| mario.uchimiya@uga.edu | |
| Phone | 706-542-8387 |
| Submit Date | 2024-06-26 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | ser |
| Analysis Type Detail | NMR |
| Release Date | 2024-07-29 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR002054 |
| Project DOI: | doi: 10.21228/M83Z6R |
| Project Title: | PyINETA: Open-source platform for INADEQUATE-JRES integration in NMR metabolomics |
| Project Summary: | This study developed a new data analysis tool for metabolomics to integrate information of NMR experiments INADEQUATE and JRES. This deposition is for samples used for the validation of this new tool. Three mice were fed with a 13C-labeled diet and the distribution of 13C-labeled metabolites was examined using INADEQUATE and JRES. |
| Institute: | University of Georgia |
| Laboratory: | Edison Lab |
| Last Name: | Mario |
| First Name: | Uchimiya |
| Address: | 315 Riverbend Rd, Athens, GA 30602 |
| Email: | mario.uchimiya@uga.edu |
| Phone: | 706-542-8387 |
| Funding Source: | NSF (1946970 awarded to A.S.E.); NIH (5R35GM148240 awarded to A.S.E.); The Max Planck Society (awarded to C.W.T.) |
| Contributors: | Arthur S. Edison |
Subject:
| Subject ID: | SU003425 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Sample source | Factor_1 (tissue_type) |
|---|---|---|---|
| SA358587 | 29 | Adrenal gland | 8 |
| SA358588 | 19 | Adrenal gland | 8 |
| SA358589 | 18 | Adrenal gland | 8 |
| SA358590 | 3 | Brain | 2 |
| SA358591 | 4 | Brain | 2 |
| SA358592 | 6 | Brain | 2 |
| SA358593 | 2 | Liver | 1 |
| SA358594 | 30 | Liver | 1 |
| SA358595 | 1 | Liver | 1 |
| SA358596 | 12 | Lung | 5 |
| SA358597 | 25 | Lung | 5 |
| SA358598 | 13 | Lung | 5 |
| SA358599 | 9 | Muscle | 3 |
| SA358600 | 7 | Muscle | 3 |
| SA358601 | 8 | Muscle | 3 |
| SA358602 | 24 | Pancreas | 7 |
| SA358603 | 16 | Pancreas | 7 |
| SA358604 | 17 | Pancreas | 7 |
| SA358605 | 20 | Plasma | 9 |
| SA358606 | 26 | Plasma | 9 |
| SA358607 | 21 | Plasma | 9 |
| SA358608 | 10 | Spleen | 4 |
| SA358609 | 11 | Spleen | 4 |
| SA358610 | 27 | Spleen | 4 |
| SA358611 | 23 | Thymmus | 6 |
| SA358612 | 15 | Thymmus | 6 |
| SA358613 | 14 | Thymmus | 6 |
| Showing results 1 to 27 of 27 |
Collection:
| Collection ID: | CO003418 |
| Collection Summary: | Liver, brain, thymus, lung, spleen, adrenal gland, pancrease, muscle, and plasma samples were collected from three mice. |
| Collection Protocol ID: | 2_Collection protocol_UGA_PyINETA_2024.docx |
| Collection Protocol Filename: | 2_Collection protocol_UGA_PyINETA_2024.docx |
| Sample Type: | Whole animals |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR003434 |
| Treatment Summary: | Three mice were fed with a diet that contains 13C labeled protein hydrolysate. Details about the diet and 13C protein hydrolysate are indicated in the attached file. |
| Treatment Protocol ID: | 3_Treatment protocol_UGA_PyINETA_2024.docx |
| Treatment Protocol Filename: | 3_Treatment protocol_UGA_PyINETA_2024.docx |
Sample Preparation:
| Sampleprep ID: | SP003432 |
| Sampleprep Summary: | Tissue samples were homogenized and dried. Dried samples were resuspended in 50 µL of deuterated water and methanol (1:4 volume ratio). The amount of material used is indicated in the attached file. |
| Sampleprep Protocol ID: | 4_Sample preparation protocol_UGA_PyINETA_2024.docx |
| Sampleprep Protocol Filename: | 4_Sample preparation protocol_UGA_PyINETA_2024.docx |
| Extract Storage: | -80℃ |
Analysis:
| Analysis ID: | AN005414 |
| Analysis Type: | NMR |
| Analysis Protocol File: | 5_Analysis protocol_UGA_PyINETA_2024.docx |
| Acquisition Parameters File: | 5_Analysis protocol_UGA_PyINETA_2024.docx |
| Processing Parameters File: | 5_Analysis protocol_UGA_PyINETA_2024.docx |
| Data Format: | ser |
| Num Factors: | 9 |
| Num Metabolites: | 13 |
| Units: | NMR intensity (autoscaled) |
NMR:
| NMR ID: | NM000287 |
| Analysis ID: | AN005414 |
| Instrument Name: | Bruker AVANCE lll |
| Instrument Type: | FT-NMR |
| NMR Experiment Type: | Other |
| NMR Comments: | This data set is based on 13C-JRES. The original Bruker ser files for individual 13C-JRES specta are in folder 'Spectra'. Further details are also in the attached protocol file. |
| Spectrometer Frequency: | 900 |
| NMR Probe: | 5-mm TXO cryoprobe |
| NMR Tube Size: | 1.7 |
