Summary of Study ST002344

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 IDST002344
Study TitleThe impact of dietary serine/glycine restriction and myriocin treatment on hepatic sphingolipid diversity during prolonged high fat diet feeding.
Study SummaryWe wanted to determine the impact of dietary serine/glycine restriction on hepatic sphingolipidome.
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 GroupsLFD, -SG LFD, HFD, -SG HFD, LFD+Veh, HFD+Veh, -SG HFD+Veh, -SG HFD+Myr
Total Subjects80
Num Males80
Raw Data AvailableYes
Raw Data File Type(s)d
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:SU002433
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57BL/6J
Age Or Age Range:8-32-week-old
Weight Or Weight Range:25-50
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
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Group
SA235281L_155High fat diet + myriocin
SA235282L_154High fat diet + myriocin
SA235283L_142High fat diet + myriocin
SA235284L_156High fat diet + myriocin
SA235285L_152High fat diet + myriocin
SA235286L_153High fat diet + myriocin
SA235287L_157High fat diet + myriocin
SA235288L_160High fat diet + myriocin
SA235289L_159High fat diet + myriocin
SA235290L_158High fat diet + myriocin
SA235291L_145High fat diet + vehicle
SA235292L_144High fat diet + vehicle
SA235293L_143High fat diet + vehicle
SA235294L_146High fat diet + vehicle
SA235295L_149High fat diet + vehicle
SA235296L_151High fat diet + vehicle
SA235297L_150High fat diet + vehicle
SA235298L_131High fat diet + vehicle
SA235299L_147High fat diet + vehicle
SA235300L_141High fat diet + vehicle
SA235301L_117Low fat diet + myriocin
SA235302L_118Low fat diet + myriocin
SA235303L_119Low fat diet + myriocin
SA235304L_116Low fat diet + myriocin
SA235305L_115Low fat diet + myriocin
SA235306L_111Low fat diet + myriocin
SA235307L_113Low fat diet + myriocin
SA235308L_114Low fat diet + myriocin
SA235309L_120Low fat diet + myriocin
SA235310L_112Low fat diet + myriocin
SA235311L_106Low fat diet + vehicle
SA235312L_108Low fat diet + vehicle
SA235313L_109Low fat diet + vehicle
SA235314L_105Low fat diet + vehicle
SA235315L_104Low fat diet + vehicle
SA235316L_102Low fat diet + vehicle
SA235317L_103Low fat diet + vehicle
SA235318L_110Low fat diet + vehicle
SA235319L_107Low fat diet + vehicle
SA235320L_101Low fat diet + vehicle
SA235321L_175Serine/glycine-free high fat diet + myriocin
SA235322L_174Serine/glycine-free high fat diet + myriocin
SA235323L_173Serine/glycine-free high fat diet + myriocin
SA235324L_176Serine/glycine-free high fat diet + myriocin
SA235325L_172Serine/glycine-free high fat diet + myriocin
SA235326L_177Serine/glycine-free high fat diet + myriocin
SA235327L_180Serine/glycine-free high fat diet + myriocin
SA235328L_179Serine/glycine-free high fat diet + myriocin
SA235329L_178Serine/glycine-free high fat diet + myriocin
SA235330L_165Serine/glycine-free high fat diet + vehicle
SA235331L_163Serine/glycine-free high fat diet + vehicle
SA235332L_166Serine/glycine-free high fat diet + vehicle
SA235333L_164Serine/glycine-free high fat diet + vehicle
SA235334L_169Serine/glycine-free high fat diet + vehicle
SA235335L_125Serine/glycine-free high fat diet + vehicle
SA235336L_170Serine/glycine-free high fat diet + vehicle
SA235337L_139Serine/glycine-free high fat diet + vehicle
SA235338L_167Serine/glycine-free high fat diet + vehicle
SA235339L_161Serine/glycine-free high fat diet + vehicle
SA235340L_140Serine/glycine-free low fat diet + myriocin
SA235341L_133Serine/glycine-free low fat diet + myriocin
SA235342L_148Serine/glycine-free low fat diet + myriocin
SA235343L_132Serine/glycine-free low fat diet + myriocin
SA235344L_168Serine/glycine-free low fat diet + myriocin
SA235345L_134Serine/glycine-free low fat diet + myriocin
SA235346L_137Serine/glycine-free low fat diet + myriocin
SA235347L_135Serine/glycine-free low fat diet + myriocin
SA235348L_136Serine/glycine-free low fat diet + myriocin
SA235349L_128Serine/glycine-free low fat diet + vehicle
SA235350L_129Serine/glycine-free low fat diet + vehicle
SA235351L_130Serine/glycine-free low fat diet + vehicle
SA235352L_127Serine/glycine-free low fat diet + vehicle
SA235353L_122Serine/glycine-free low fat diet + vehicle
SA235354L_123Serine/glycine-free low fat diet + vehicle
SA235355L_121Serine/glycine-free low fat diet + vehicle
SA235356L_124Serine/glycine-free low fat diet + vehicle
SA235357L_162Serine/glycine-free low fat diet + vehicle
SA235358L_126Serine/glycine-free low fat diet + vehicle
Showing results 1 to 78 of 78

Collection:

Collection ID:CO002426
Collection Summary:Liver samples were collected using Wollenberger clamps pre-cooled to the temperature of liquid nitrogen and stored at -80 C until analysis.
Sample Type:Liver
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002445
Treatment Summary:Animals were subjected to 8 different dietary interventions: 1. Low fat diet + vehicle 2. Low fat diet + myriocin 3. Serine/glycine-free low fat diet + vehicle 4. Serine/glycine-free low fat diet + myriocin 5. High fat diet + vehicle 6. High fat fat diet + myriocin 7. Serine/glycine-free high fat diet + vehicle 7. Serine/glycine-free high fat diet + myriocin

Sample Preparation:

Sampleprep ID:SP002439
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 AN003828
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:CH002833
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.
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:MS003570
Analysis ID:AN003828
Instrument Name:Agilent 6460 QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Mass Hunter
Ion Mode:POSITIVE
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