Summary of Study ST003630
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 PR002243. The data can be accessed directly via it's Project DOI: 10.21228/M8PR8Q 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 | ST003630 |
| Study Title | Individual glycemic responses to carbohydrates vary and reflect underlying metabolic physiology (Lipidomics) |
| Study Summary | We measured PPGRs using continuous glucose monitoring (CGM) in 55 well-phenotyped participants challenged with seven different carbohydrates administered in replicate under standardized conditions. Plasma sample were collected at baseline visit for metabolomics. The ClinicalTrials.gov registration identifier is NCT03919877. |
| Institute | Stanford University |
| Last Name | Michael |
| First Name | Snyder |
| Address | 300 Pasteur Drive, M-344A Stanford, California 94305 |
| mpsnyder@stanford.edu | |
| Phone | (650) 723-4668 |
| Submit Date | 2024-11-18 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2025-01-12 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR002243 |
| Project DOI: | doi: 10.21228/M8PR8Q |
| Project Title: | Individual glycemic responses to carbohydrates vary and reflect underlying metabolic physiology |
| Project Summary: | Elevated postprandial glycemic responses (PPGRs) are associated with type 2 diabetes and cardiovascular disease. PPGRs to the same foods have been shown to vary between individuals, but the systematic characterization of the underlying physiologic and molecular basis is lacking. We measured PPGRs using continuous glucose monitoring (CGM) in 55 well-phenotyped participants challenged with seven different carbohydrates administered in replicate under standardized conditions. We also measured the effects of preloading a rice meal with fiber, protein, or fat (“mitigators”). To examine the physiologic and molecular basis for inter-individual PPGR differences, we performed gold-standard metabolic tests and multi-omics profiling. We discovered: 1. Postprandial glycemic responses (PPGRs) to different standardized carbohydrate meals vary between individuals. 2. Individuals’ PPGRs are associated with their metabolic phenotypes, including insulin resistance. 3. Individual’s PPGRs can be reduced in magnitude and delayed by premeal mitigators which is associated with their metabolic phenotypes. 4. Individuals can be stratified by their PPGRs to different carbohydrate meals, and PPGR subtypes have distinct metabolic profiles and multi-omics patterns. 5. Individuals’ metabolic phenotype can be inferred from both food-specific PPGRs and baseline omics. |
| Institute: | Stanford University |
| Department: | Genetics |
| Laboratory: | Michael P. Snyder |
| Last Name: | Snyder |
| First Name: | Michael |
| Address: | 300 Pasteur Drive, M-344A Stanford, California 94305 |
| Email: | mpsnyder@stanford.edu |
| Phone: | (650) 723-4668 |
| Funding Source: | NIH |
Subject:
| Subject ID: | SU003760 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
| Gender: | Male and female |
Factors:
Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Time |
|---|---|---|
| SA393523 | XB21_4 | Baseline |
| SA393524 | XB107_5 | Baseline |
| SA393525 | XB95_3 | Baseline |
| SA393526 | XB94_2 | Baseline |
| SA393527 | XB115_1 | Baseline |
| SA393528 | XB107_4 | Baseline |
| SA393529 | XB79_6 | Baseline |
| SA393530 | XB14_3 | Baseline |
| SA393531 | XB76_1 | Baseline |
| SA393532 | XB20_5 | Baseline |
| SA393533 | XB65_1 | Baseline |
| SA393534 | XB21_5 | Baseline |
| SA393535 | XB6_2 | Baseline |
| SA393536 | XB115_2 | Baseline |
| SA393537 | XB38_5 | Baseline |
| SA393538 | XB21_3 | Baseline |
| SA393539 | XB1_3 | Baseline |
| SA393540 | XB59_3 | Baseline |
| SA393541 | XB111_3 | Baseline |
| SA393542 | XB100_4 | Baseline |
| SA393543 | XB111_2 | Baseline |
| SA393544 | XB107_3 | Baseline |
| SA393545 | XB22_1 | Baseline |
| SA393546 | XB33_4 | Baseline |
| SA393547 | XB114_1 | Baseline |
| SA393548 | XB59_4 | Baseline |
| SA393549 | XB45_2 | Baseline |
| SA393550 | XB97_1 | Baseline |
| SA393551 | XB97_3 | Baseline |
| SA393552 | XB25_2 | Baseline |
| SA393553 | XB115_4 | Baseline |
| SA393554 | XB68_5 | Baseline |
| SA393555 | XB22_2 | Baseline |
| SA393556 | XB20_6 | Baseline |
| SA393557 | XB89_4 | Baseline |
| SA393558 | XB94_3 | Baseline |
| SA393559 | XB114_3 | Baseline |
| SA393560 | XB79_7 | Baseline |
| SA393561 | XB112_2 | Baseline |
| SA393562 | XB25_1 | Baseline |
| SA393563 | XB114_2 | Baseline |
| SA393564 | XB100_5 | Baseline |
| SA393565 | XB65_2 | Baseline |
| SA393566 | XB1_5 | Baseline |
| SA393567 | XB43_3 | Baseline |
| SA393568 | XB115_3 | Baseline |
| SA393569 | XB1_4 | Baseline |
| SA393570 | XB2_2 | Baseline |
| SA393571 | XB97_2 | Baseline |
| SA393572 | XB43_2 | Baseline |
| SA393573 | XB43_1 | Baseline |
| SA393574 | XB68_4 | Baseline |
| SA393575 | XB6_3 | Baseline |
| SA393576 | XB89_3 | Baseline |
| SA393577 | XB20_4 | Baseline |
| SA393578 | XB59_1 | Baseline |
| SA393579 | XB45_1 | Baseline |
| SA393580 | XB38_1 | Baseline |
| SA393581 | XB79_3 | Baseline |
| SA393582 | XB54_1 | Baseline |
| SA393583 | XB79_2 | Baseline |
| SA393584 | XB20_2 | Baseline |
| SA393585 | XB111_1 | Baseline |
| SA393586 | XB59_2 | Baseline |
| SA393587 | XB95_2 | Baseline |
| SA393588 | XB32_1 | Baseline |
| SA393589 | XB44_1 | Baseline |
| SA393590 | XB20_1 | Baseline |
| SA393591 | XB24_1 | Baseline |
| SA393592 | XB79_1 | Baseline |
| SA393593 | XB1_1 | Baseline |
| SA393594 | XB101_1 | Baseline |
| SA393595 | XB70_3 | Baseline |
| SA393596 | XB14_2 | Baseline |
| SA393597 | XB95_1 | Baseline |
| SA393598 | XB18_1 | Baseline |
| SA393599 | XB100_2 | Baseline |
| SA393600 | XB70_2 | Baseline |
| SA393601 | XB70_1 | Baseline |
| SA393602 | XB68_1 | Baseline |
| SA393603 | XB2_1 | Baseline |
| SA393604 | XB14_1 | Baseline |
| SA393605 | XB100_1 | Baseline |
| SA393606 | XB89_1 | Baseline |
| SA393607 | XB68_2 | Baseline |
| SA393608 | XB1_2 | Baseline |
| SA393609 | XB100_3 | Baseline |
| SA393610 | XB79_5 | Baseline |
| SA393611 | XB38_4 | Baseline |
| SA393612 | XB94_1 | Baseline |
| SA393613 | XB20_3 | Baseline |
| SA393614 | XB68_3 | Baseline |
| SA393615 | XB34_1 | Baseline |
| SA393616 | XB6_1 | Baseline |
| SA393617 | XB107_2 | Baseline |
| SA393618 | XB62_1 | Baseline |
| SA393619 | XB21_2 | Baseline |
| SA393620 | XB38_3 | Baseline |
| SA393621 | XB33_3 | Baseline |
| SA393622 | XB21_1 | Baseline |
Collection:
| Collection ID: | CO003753 |
| Collection Summary: | Participants underwent evaluations, screening tests, and metabolic tests at the CTRU after an overnight fast. During the screening and the omics visits, stool, urine, peripheral blood mononuclear cells (PBMC), plasma, and serum samples were collected. Some individuals had multiple omics visits to monitor omics changes throughout the study. |
| Sample Type: | Blood (plasma) |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR003769 |
| Treatment Summary: | Baseline sample no treatment. |
| Human Fasting: | Yes |
Sample Preparation:
| Sampleprep ID: | SP003767 |
| Sampleprep Summary: | Metabolites and complex lipids were extracted using a biphasic separation with cold methyl tert-butyl ether (MTBE), methanol, and water in the deep well plate format. Briefly, 1 mL of ice-cold MTBE and 260 μL methanol was added to 40 μL of the plasma spiked-in with 40 µL deuterated lipid internal standards (Sciex, cat# 5040156, lot# LPISTDKIT-103). The samples were then agitated at 4°C for 30 minutes. After the addition of 250 μL of ice-cold water, the samples were vortexed for 1 minute and centrifuged at 3,800 g for five minutes at 4°C. The upper organic phase contained the lipids, the lower aqueous phase contained the metabolites, and the proteins were precipitated at the bottom of the well. For quality control, three reference plasma samples (40 µL plasma) as well as one control sample lacking any sample were processed in parallel per plate. For lipidomics, 700 µL of the organic phase was dried down under a stream of nitrogen and resolubilized in 200 µL of methanol for storage at -20°C until analysis. On the day of the analysis, samples were dried down, resuspended in 300 µL of 10 mM ammonium acetate in 90:10 methanol:toluene and centrifuged at 3,800 g for five minutes at 4°C. |
| Sampleprep Protocol Filename: | lipidomics_process.pdf |
| Extract Storage: | -80℃ |
Chromatography:
| Chromatography ID: | CH004531 |
| Chromatography Summary: | Check the protocol for details |
| Instrument Name: | none |
| Column Name: | none |
| Column Temperature: | NA |
| Flow Gradient: | NA |
| Flow Rate: | NA |
| Internal Standard: | Yes |
| Solvent A: | none |
| Solvent B: | none |
| Chromatography Type: | None (Direct infusion) |
Analysis:
| Analysis ID: | AN005963 |
| Analysis Type: | MS |
| Analysis Protocol File: | lipidomics_process.pdf |
| Chromatography ID: | CH004531 |
| Num Factors: | 1 |
| Num Metabolites: | 652 |
| Units: | nmol/g |
