Summary of Study ST002029

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 PR001287. The data can be accessed directly via it's Project DOI: 10.21228/M8BX22 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.

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Study IDST002029
Study TitleMetabolomics Analysis of Blood Plasma and Stool from Six Week Flaxseed Dietary Intervention in Postmenopausal Women (Serum/Bile acids)
Study SummarySamples were taken before and after 6 weeks of flaxseed dietary intervention. Serum and fecal metabolomics were performed to characterize the metabolomic profiles of serum and stool metabolites pre- and post-intervention.
Institute
University of California, Davis
Last Namefolz
First Namejake
Address451 Health Science Drive
Emailjfolz@ucdavis.edu
Phone7155636311
Submit Date2021-12-21
Raw Data AvailableYes
Raw Data File Type(s)wiff
Analysis Type DetailLC-MS
Release Date2023-01-02
Release Version1
jake folz jake folz
https://dx.doi.org/10.21228/M8BX22
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001287
Project DOI:doi: 10.21228/M8BX22
Project Title:Metabolomics Analysis of Blood Plasma and Stool from Six Week Flaxseed Dietary Intervention in Postmenopausal Women
Project Summary:Samples were taken before and after 6 weeks of flaxseed dietary intervention. Serum and fecal metabolomics were performed to characterize the metabolomic profiles of serum and stool metabolites pre- and post-intervention.
Institute:University of California, Davis
Last Name:Folz
First Name:jake
Address:451 Health Science Drive
Email:jfolz@ucdavis.edu
Phone:7155636311

Subject:

Subject ID:SU002111
Subject Type:Human
Subject Species:Homo sapiens
Taxonomy ID:9606

Factors:

Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)

mb_sample_id local_sample_id Treatment (pre-post)
SA190751RS-02152009Pre-intervention
SA190752RS-02146133Pre-intervention
SA190753RS-02142009Pre-intervention
SA190754RS-02152490Pre-intervention
SA190755RS-02145607Pre-intervention
SA190756RS-02155235Pre-intervention
SA190757RS-02162522Pre-intervention
SA190758RS-02159492Pre-intervention
SA190759RS-02156423Pre-intervention
SA190760RS-02139721Pre-intervention
SA190761RS-02153108Pre-intervention
SA190762RS-02138650Pre-intervention
SA190763RS-02128352Pre-intervention
SA190764RS-02127671Pre-intervention
SA190765RS-02126796Pre-intervention
SA190766RS-02124349Pre-intervention
SA190767RS-02129862Pre-intervention
SA190768RS-02135566Pre-intervention
SA190769RS-02137274Pre-intervention
SA190770RS-02136527Pre-intervention
SA190771RS-02136451Pre-intervention
SA190772RS-02163042Pre-intervention
SA190773RS-02165754Pre-intervention
SA190774RS-02184819Pre-intervention
SA190775RS-02180401Pre-intervention
SA190776RS-02179400Pre-intervention
SA190777RS-02177759Pre-intervention
SA190778RS-02185095Pre-intervention
SA190779RS-02186113Pre-intervention
SA190780RS-02193435Pre-intervention
SA190781RS-02189574Pre-intervention
SA190782RS-02186657Pre-intervention
SA190783RS-02176958Pre-intervention
SA190784RS-02174862Pre-intervention
SA190785RS-02169817Pre-intervention
SA190786RS-02168982Pre-intervention
SA190787RS-02167382Pre-intervention
SA190788RS-02166761Pre-intervention
SA190789RS-02171890Pre-intervention
SA190790RS-02173280Pre-intervention
SA190791RS-02174609Pre-intervention
SA190792RS-02173913Pre-intervention
SA190793RS-02173508Pre-intervention
SA190794RS-02119140Pre-intervention
SA190795RS-02118840Pre-intervention
SA190796RS-02046599Pre-intervention
SA190797RS-02045370Pre-intervention
SA190798RS-02041308Pre-intervention
SA190799RS-02040155Pre-intervention
SA190800RS-02047137Pre-intervention
SA190801RS-02049971Pre-intervention
SA190802RS-02055157Pre-intervention
SA190803RS-02052504Pre-intervention
SA190804RS-02051836Pre-intervention
SA190805RS-02037571Pre-intervention
SA190806RS-02037282Pre-intervention
SA190807RS-02020293Pre-intervention
SA190808RS-02019510Pre-intervention
SA190809RS-02017643Pre-intervention
SA190810RS-01975659Pre-intervention
SA190811RS-02022737Pre-intervention
SA190812RS-02023824Pre-intervention
SA190813RS-02029507Pre-intervention
SA190814RS-02027065Pre-intervention
SA190815RS-02024202Pre-intervention
SA190816RS-02055215Pre-intervention
SA190817RS-02057574Pre-intervention
SA190818RS-02099922Pre-intervention
SA190819RS-02099604Pre-intervention
SA190820RS-02096868Pre-intervention
SA190821RS-02096722Pre-intervention
SA190822RS-02101117Pre-intervention
SA190823RS-02107455Pre-intervention
SA190824RS-02116664Pre-intervention
SA190825RS-02108921Pre-intervention
SA190826RS-02108617Pre-intervention
SA190827RS-02095379Pre-intervention
SA190828RS-02091843Pre-intervention
SA190829RS-02062802Pre-intervention
SA190830RS-02061579Pre-intervention
SA190831RS-02061501Pre-intervention
SA190832RS-02060161Pre-intervention
SA190833RS-02080484Pre-intervention
SA190834RS-02080521Pre-intervention
SA190835RS-02089132Pre-intervention
SA190836RS-02088574Pre-intervention
SA190837RS-02082111Pre-intervention
SA190838RS-02198195Pre-intervention
SA190839RS-02203857Pre-intervention
SA190840RS-02353557Pre-intervention
SA190841RS-02349825Pre-intervention
SA190842RS-02349202Pre-intervention
SA190843RS-02348475Pre-intervention
SA190844RS-02353973Pre-intervention
SA190845RS-02505087Pre-intervention
SA190846RS-02621406Pre-intervention
SA190847RS-02620835Pre-intervention
SA190848RS-02613837Pre-intervention
SA190849RS-02583622Pre-intervention
SA190850RS-02348427Pre-intervention
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Collection:

Collection ID:CO002104
Collection Summary:Samples were taken before and after 6 weeks of flaxseed dietary intervention. Serum and fecal metabolomics were performed to characterize the metabolomic profiles of serum and stool metabolites pre- and post-intervention.
Sample Type:Blood (serum)

Treatment:

Treatment ID:TR002123
Treatment Summary:Samples were taken before and after 6 weeks of flaxseed dietary intervention. Serum and fecal metabolomics were performed to characterize the metabolomic profiles of serum and stool metabolites pre- and post-intervention.

Sample Preparation:

Sampleprep ID:SP002117
Sampleprep Summary:Extraction is carried out using a bi-phasic solvent system of cold methanol, methyl tert-butyl ether (MTBE), and water. In more detail, cold methanol (225 µL is added to a 5mg tissue sample aliquot, which is placed into a 1.5 mL Eppendorf tube. Then, 750 µL of cold MTBE is added, followed by vortexing for 10 s. and shaking for 6 min. at 4ºC. Phase separation is induced by adding 188 µL of mass spec-grade water. After vortexing for 20 s. the sample is centrifuged at 14,000 rpm for 2 min. The upper organic phase is collected in two 300 µL aliquots for lipid analysis polar layer is collected in two 125 µL aliquots for HILIC analysis. One is stored at -20ºC as a backup and the other is evaporated to dryness in a SpeedVac. Dried extracts are resuspended in acetonitrile.

Combined analysis:

Analysis ID AN003299
Analysis type MS
Chromatography type Reversed phase
Chromatography system Vanquish
Column Waters Acquity BEH C18 (100 x 2mm,1.7um)
MS Type ESI
MS instrument type Ion trap
MS instrument name ABI Sciex 6500+
Ion Mode NEGATIVE
Units nM

Chromatography:

Chromatography ID:CH002438
Instrument Name:Vanquish
Column Name:Waters Acquity BEH C18 (100 x 2mm,1.7um)
Chromatography Type:Reversed phase

MS:

MS ID:MS003069
Analysis ID:AN003299
Instrument Name:ABI Sciex 6500+
Instrument Type:Ion trap
MS Type:ESI
MS Comments:Extracts were analyzed by liquid chromatography (Waters ACQUITY UPLC I-Class system) coupled to a Sciex 6500+ QTRAP hybrid, triple quadrupole linear ion trap mass spectrometer. 5 µL of each extract was injected. Scheduled multiple reaction monitoring (MRM) was performed with optimized collision energies, de-clustering potentials, and collision cell exit potentials for individual analyte. A LC-MRM targeted method was used to analyze both bile acids and steroids with positive and negative polarity switching. Oxylipins were analyzed in another LC-MRM method in negative ionization mode only. All analytes were quantified against 6-point calibration curves using internal standards. Turbo Spray Ion Source parameters are: curtain gas (CUR) 25 psi, nebulizer gas (GS1) 50 psi, turbo-gas (GS2) 50 psi, electrospray voltage −4.5 kV/+3 kV, and source temperature 525 ◦C. Nitrogen was used as the collision gas. Software Analyst 1.6.3 and MultiQuant 3.0.2 (AB Sciex) were used for data acquisition and quantification. MRM transitions for the analytes are provided in the supplementary Tables S8 and S9.
Ion Mode:NEGATIVE
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