Summary of Study ST002340

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 PR001502. The data can be accessed directly via it's Project DOI: 10.21228/M8JD81 This work is supported by NIH grant, U2C- DK119886.

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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 IDST002340
Study TitleSerine supplementation and hepatic and skin sphingolipid diversity
Study SummaryWe analyzed hepatic and paw skin lipid metabolites in mice (BKS-db/db) in response to dietary serine supplementation.
Institute
Salk Institute for Biological Studies
DepartmentMolecular and Cell Biology Laboratory
LaboratoryMetallo Lab
Last NameHandzlik
First NameMichal
Address10010 N Torrey Pines Rd, La Jolla, California, 92037, USA
Emailmhandzlik@salk.edu
Phone2069601945
Submit Date2022-11-11
Num GroupsControl and serine supplemented
Total Subjects16
Num Males16
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2024-01-01
Release Version1
Michal Handzlik Michal Handzlik
https://dx.doi.org/10.21228/M8JD81
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001502
Project DOI:doi: 10.21228/M8JD81
Project Title:Serine and lipid metabolism
Project Summary:We analyzed hepatic polar and lipid metabolites in mice (C57BL/6J) in response to two dietary interventions. The first was: 1) low fat (LFD), 2) serine/glycine-free LFD (-SG LFD), high fat (HFD), and serine/glycine-free HFD (-SG HFD). And the second was: 1) low fat (LFD), high fat (HFD), serine/glycine-free HFD (-SG HFD), and serine/glycine-free HFD (-SG HFD) with myriocin (0.3 mg/kg every other day) treatment. The goal of the study was to determine the impact of dietary serine/glycine restriction and myriocin treatment on the hepatic lipidome.
Institute:Salk Institute for Biological Studies
Department:Molecular and Cell Biology Laboratory
Laboratory:Metallo Lab
Last Name:Handzlik
First Name:Michal
Address:10010 N Torrey Pines Rd, La Jolla, California, 92037, USA
Email:mhandzlik@salk.edu
Phone:2069601945
Funding Source:R01CA234245

Subject:

Subject ID:SU002429
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:BKS-db/db
Age Or Age Range:14-week-old
Weight Or Weight Range:40-50
Gender:Male
Animal Animal Supplier:JAX
Animal Housing:5/cage
Animal Light Cycle:12h dark/12 h light
Animal Feed:Special diets; see group labeling
Animal Water:Ad libitum

Factors:

Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Group
SA235065L_485Control diet
SA235066L_483Control diet
SA235067L_482Control diet
SA235068L_486Control diet
SA235069L_487Control diet
SA235070L_489Control diet
SA235071L_488Control diet
SA235072S_481Control diet
SA235073L_481Control diet
SA235074S_487Control diet
SA235075S_488Control diet
SA235076S_485Control diet
SA235077S_483Control diet
SA235078S_482Control diet
SA235079S_489Control diet
SA235080S_486Control diet
SA235081L_494Serine supplemented diet
SA235082L_493Serine supplemented diet
SA235083L_492Serine supplemented diet
SA235084L_497Serine supplemented diet
SA235085L_498Serine supplemented diet
SA235086S_493Serine supplemented diet
SA235087L_499Serine supplemented diet
SA235088L_491Serine supplemented diet
SA235089L_490Serine supplemented diet
SA235090S_499Serine supplemented diet
SA235091S_491Serine supplemented diet
SA235092S_498Serine supplemented diet
SA235093S_492Serine supplemented diet
SA235094S_494Serine supplemented diet
SA235095S_497Serine supplemented diet
SA235096S_490Serine supplemented diet
Showing results 1 to 32 of 32

Collection:

Collection ID:CO002422
Collection Summary:Liver and paw skin samples were collected using Wollenberger clamps pre-cooled to the temperature of liquid nitrogen and stored at -80 C until analysis.
Sample Type:Liver;skin
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002441
Treatment Summary:BKS-db/db mice were subjected to a dietary intervention that consisted of a control diet or serine supplemented diet.

Sample Preparation:

Sampleprep ID:SP002435
Sampleprep Summary:Samples were extracted with 400 ul of methanol (-20 C), 100 ul of water (ice-cold), 400 saline (ice-cold), and 1000 ul of chloroform (-20 C).
Processing Storage Conditions:Room temperature
Extract Storage:4℃

Combined analysis:

Analysis ID AN003823
Analysis type MS
Chromatography type Reversed phase
Chromatography system 6460C
Column Peeke Scientific Spectra 3um C8SR (150 x 3mm)
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name Agilent 6460 QQQ
Ion Mode POSITIVE
Units normalized ion count/mg protein

Chromatography:

Chromatography ID:CH002829
Chromatography Summary:The gradient elution program consisted of the following profile: 0 min, 82% B; 3 min, 82% B; 4 min, 90% B, 18 min, 99% B; 25 min, 99%, 27 min, 82% B, 30 min, 82% B. Column re-equilibration followed each sample and lasted 10 min.
Instrument Name:6460C
Column Name:Peeke Scientific Spectra 3um C8SR (150 x 3mm)
Column Temperature:40
Flow Rate:0.5 ml/min
Solvent A:100% water; 0.2% formic acid; 2 mM ammonium formate
Solvent B:100% methanol; 0.2% formic acid; 1 mM ammonium formate
Chromatography Type:Reversed phase

MS:

MS ID:MS003565
Analysis ID:AN003823
Instrument Name:Agilent 6460 QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Mass Hunter Quantifier
Ion Mode:POSITIVE
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