Summary of Study ST000818

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 PR000583. The data can be accessed directly via it's Project DOI: 10.21228/M89M31 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	ST000818
Study Title	Integrated nutrigenomic and metabolomic analysis of Africans with variable diet
Study Type	MS analysis
Study Summary	Untargeted metabolic profiling and lipidomics profiling will be used to characterize a broad array of metabolites from plasma in 450 ethnically diverse individuals from Ethiopia, Tanzania, and Botswana with diverse diets. Mass spectrometry will be used to quantify metabolites previously found to be associated with cardiometabolic risk as well as the most informative metabolites from the untargeted screen. We will test for association of selected biomarkers with diet, geography, ancestry, and phenotypic variation. Metabolites obtained will be correlated with diet as well as clinical and anthropometric phenotypes. Using existing tools, we will assemble metabolites that associate with the various phenotypes into pathways and larger networks to provide insights into factors that relate to cardiometabolic health and disease. Finally, we will integrate metabolic and phenotypic data with genetic data from the SNP array and with high coverage whole genome sequence data. We will identify loci that play a role in local adaptation to diverse diets and will identify genetic variants associated with metabolite levels (mQTLs) and with the phenotypic traits listed above.
Institute	University of Michigan
Department	Biomedical Research Core Facilities
Laboratory	Metabolomics core
Last Name	Kachman
First Name	Maureen
Address	6300 Brehm Tower, 1000 Wall Street, Ann Arbor, MI 48105-5714
Email	mkachman@med.umich.edu
Phone	(734) 232-8175
Submit Date	2017-07-13
Num Groups	43
Total Subjects	450
Study Comments	Targeted mass spectrometry will be used to quantify metabolites previously found to be associated with cardiometabolic risk as well as the most informative metabolites from the untargeted screen. We will test for association of selected biomarkers with diet, geography, ancestry, and phenotypic variation. Metabolites obtained will be correlated with diet as well as clinical and anthropometric phenotypes. Using existing tools, we will assemble metabolites that associate with the various phenotypes into pathways and larger networks to provide insights into factors that relate to cardiometabolic health and disease. Finally, we will integrate metabolic and phenotypic data with genetic data from the SNP array and with high coverage whole genome sequence data. We will identify loci that play a role in local adaptation to diverse diets and will identify genetic variants associated with metabolite levels (mQTLs) and with the phenotypic traits listed above.
Raw Data Available	Yes
Raw Data File Type(s)	wiff
Analysis Type Detail	LC-MS
Release Date	2019-09-23
Release Version	1

Select appropriate tab below to view additional metadata details:

Project:

Project ID:	PR000583
Project DOI:	doi: 10.21228/M89M31
Project Title:	African Diet Studies
Project Type:	MS analysis
Project Summary:	Integrated nutrigenomic and metabolomic analysis of Africans with variable diet
Institute:	University of Pennsylvania
Department:	Department of Genetics
Laboratory:	Tishkoff
Last Name:	Tishkoff
First Name:	Sarah
Address:	Philadelphia, PA
Email:	tishkoff@upenn.edu
Phone:	215-746-2670

Subject:

Subject ID:	SU000844
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	Categorization
SA045378	S00023623	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045379	S00023271	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045380	S00023269	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045381	S00023265	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045382	S00023620	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045383	S00023614	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045384	S00023613	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045385	S00023625	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045386	S00023337	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045387	S00023615	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045388	S00023338	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:F
SA045389	S00023626	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045390	S00023619	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045391	S00023339	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045392	S00023618	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045393	S00023627	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045394	S00023340	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045395	S00023617	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045396	S00023624	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045397	S00023609	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045398	S00023621	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045399	S00023611	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045400	S00023612	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045401	S00023616	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045402	S00023622	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045403	S00023610	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045404	S00023270	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045405	S00023268	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045406	S00023267	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045407	S00023266	Amhara \| Country:Ethiopia \| Ethnicity:Amhara \| Occupation:Agriculturalist \| Sex:M
SA045408	S00023314	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045409	S00023311	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045410	S00023313	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045411	S00023315	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045412	S00023312	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045413	S00023318	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045414	S00023321	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045415	S00023325	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045416	S00023319	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045417	S00023320	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045418	S00023316	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045419	S00023324	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045420	S00023332	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045421	S00023333	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045422	S00023323	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045423	S00023328	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045424	S00023322	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045425	S00023334	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:F
SA045426	S00023336	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045427	S00023335	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045428	S00023317	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045429	S00023330	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045430	S00023308	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045431	S00023307	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045432	S00023326	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045433	S00023309	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045434	S00023310	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045435	S00023327	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045436	S00023329	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045437	S00023331	Dizi \| Country:Ethiopia \| Ethnicity:Dizi \| Occupation:Agropastoralist \| Sex:M
SA045438	S00023382	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045439	S00023384	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045440	S00023395	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045441	S00023660	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045442	S00023662	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045443	S00023385	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045444	S00023659	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045445	S00023658	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045446	S00023656	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045447	S00023657	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045448	S00023393	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045449	S00023374	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045450	S00023375	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045451	S00023387	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045452	S00023376	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045453	S00023377	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045454	S00023391	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045455	S00023379	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045456	S00023380	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045457	S00023381	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045458	S00023373	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045459	S00023378	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045460	S00023394	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045461	S00023661	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045462	S00023383	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045463	S00023390	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045464	S00023392	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045465	S00023386	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045466	S00023389	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045467	S00023388	Hadza_settled \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:M
SA045468	S00023370	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045469	S00023360	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045470	S00023371	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045471	S00023369	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045472	S00023368	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045473	S00023372	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045474	S00023357	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045475	S00023355	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045476	S00023353	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F
SA045477	S00023356	Hadza_traditional \| Country:Tanzania \| Ethnicity:Hadza \| Occupation:Hunter-Gatherer \| Sex:F

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Collection:

Collection ID:	CO000838
Collection Summary:	-
Sample Type:	Blood

Treatment:

Treatment ID:	TR000858
Treatment Summary:	-

Sample Preparation:

Sampleprep ID:	SP000851
Sampleprep Summary:	-
Sampleprep Protocol Filename:	A003_-_Untargeted_Metabolomics.pdf

Combined analysis:

Analysis ID	AN001296	AN001297	AN001298	AN001299
Analysis type	MS	MS	MS	MS
Chromatography type	Reversed phase	Reversed phase	Reversed phase	Reversed phase
Chromatography system	Agilent	Agilent	Shimadzu CTO-20A Nexera X2	Shimadzu CTO-20A Nexera X2
Column	Waters Acquity HSS T3 (50 x 2.1mm,1.8um)	Waters Acquity HSS T3 (50 x 2.1mm,1.8um)	Waters Acquity HSS T3 (50 x 2.1mm,1.8um)	Waters Acquity HSS T3 (50 x 2.1mm,1.8um)
MS Type	ESI	ESI	ESI	ESI
MS instrument type	QTOF	QTOF	Triple TOF	Triple TOF
MS instrument name	Agilent 6530 QTOF	Agilent 6530 QTOF	ABI Sciex 5600+ TripleTOF	ABI Sciex 5600+ TripleTOF
Ion Mode	NEGATIVE	POSITIVE	NEGATIVE	POSITIVE
Units	peak area normalized	peak area normalized	peak area normalized	peak area normalized

Chromatography:

Chromatography ID:	CH000908
Instrument Name:	Agilent
Column Name:	Waters Acquity HSS T3 (50 x 2.1mm,1.8um)
Chromatography Type:	Reversed phase

Chromatography ID:	CH000909
Instrument Name:	Shimadzu CTO-20A Nexera X2
Column Name:	Waters Acquity HSS T3 (50 x 2.1mm,1.8um)
Column Temperature:	55
Flow Rate:	0.400uL/min
Solvent A:	40% acetonitrile/60% water; 10 mM ammonium acetate
Solvent B:	10% acetonitrile/5% water/85% isopropanol; 10 mM ammonium acetate
Chromatography Type:	Reversed phase

MS:

MS ID:	MS001189
Analysis ID:	AN001296
Instrument Name:	Agilent 6530 QTOF
Instrument Type:	QTOF
MS Type:	ESI
Ion Mode:	NEGATIVE
Analysis Protocol File:	A003_-_Untargeted_Metabolomics.pdf

MS ID:	MS001190
Analysis ID:	AN001297
Instrument Name:	Agilent 6530 QTOF
Instrument Type:	QTOF
MS Type:	ESI
Ion Mode:	POSITIVE
Analysis Protocol File:	A003_-_Untargeted_Metabolomics.pdf

MS ID:	MS001191
Analysis ID:	AN001298
Instrument Name:	ABI Sciex 5600+ TripleTOF
Instrument Type:	Triple TOF
MS Type:	ESI
Ion Mode:	NEGATIVE
Analysis Protocol File:	A004_-_Shotgun_Lipidomics.pdf

MS ID:	MS001192
Analysis ID:	AN001299
Instrument Name:	ABI Sciex 5600+ TripleTOF
Instrument Type:	Triple TOF
MS Type:	ESI
Ion Mode:	POSITIVE
Analysis Protocol File:	A004_-_Shotgun_Lipidomics.pdf