Summary of Study ST001487

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR001003. The data can be accessed directly via it's Project DOI: 10.21228/M8210V This work is supported by NIH grant, U2C- DK119886.


Perform statistical analysis  |  Show all samples  |  Show named metabolites  |  Download named metabolite data  
Download mwTab file (text)   |  Download mwTab file(JSON)   |  Download data files (Contains raw data)
Study IDST001487
Study TitleMetabolomics of Ndufs4 KO brain regions (part - VII)
Study SummaryTargeted LC-MS/MS analysis of amino acids and acylcarnitines in Ndufs4 KO and WT mouse olfactory bulbs (OB)
North-West University
Last NameLouw
First NameRoan
AddressHofman Street
Phone+27 18 299 4074
Submit Date2020-09-11
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2021-09-10
Release Version1
Roan Louw Roan Louw application/zip

Select appropriate tab below to view additional metadata details:


Project ID:PR001003
Project DOI:doi: 10.21228/M8210V
Project Title:Ndufs4 KO mouse model metabolomics studies
Project Type:Multi-platform metabolomics analysis
Project Summary:Multi-platform metabolomics analysis of tissues and biofluids from the Ndufs4 knockout (Ndufs4-/-) mouse model of human Leigh syndrome
Institute:North-West University
Last Name:Louw
First Name:Roan
Address:Hofman Street
Phone:+27 18 299 4074


Subject ID:SU001561
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:Ndufs4, n/02705 8
Age Or Age Range:45-50 days
Animal Animal Supplier:Jackson Laboratory (ME, USA)
Animal Light Cycle:12:12 h
Animal Feed:Rodent Breeder, Cat. #RM1845, LabChef, Nutritionhub
Animal Water:ad libitum


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

mb_sample_id local_sample_id Genotype
SA125331OB1 12 (14)KO
SA125332OB1 15 (15)KO
SA125333OB1 19 (19)KO
SA125334OB1 9 (10)KO
SA125335OB1 16 (16)KO
SA125336OB1 5 (42)KO
SA125337OB1 1 (36)KO
SA125338OB1 2 (38)KO
SA125339OB1 4 (41)KO
SA125340OB1 21 (21)KO
SA125341OB1 24 (24)KO
SA125342OB2 35 (35)KO
SA125343OB2 39 (3)KO
SA125344OB2 42 (E4)KO
SA125345OB2 33 (33)KO
SA125346OB2 32 (32)KO
SA125347OB2 27 (27)KO
SA125348OB2 29 (29)KO
SA125349OB2 31 (34)KO
SA125350OB2 41 (5)WT
SA125351OB2 40 (4)WT
SA125352OB1 13 (12)WT
SA125353OB1 14 (13)WT
SA125354OB1 17 (17)WT
SA125355OB1 18 (18)WT
SA125356OB1 11 (11)WT
SA125357OB1 10 (9)WT
SA125358OB1 6 (40)WT
SA125359OB1 7 (7)WT
SA125360OB1 8 (8)WT
SA125361OB1 20 (20)WT
SA125362OB1 22 (22)WT
SA125363OB2 34 (31)WT
SA125364OB2 36 (37)WT
SA125365OB2 37 (1)WT
SA125366OB2 38 (2)WT
SA125367OB2 30 (30)WT
SA125368OB2 28 (28)WT
SA125369OB1 23 (23)WT
SA125370OB2 25 (25)WT
SA125371OB2 26 (26)WT
SA125372OB1 3 (39)WT
Showing results 1 to 42 of 42


Collection ID:CO001556
Collection Summary:Mice were euthanized between postnatal day (P) 45-50 via cervical dislocation at the same time of day (8:00-9:00 AM) after overnight (12-h) fasting. The brain was removed and rinsed with saline solution (SABAX PBS; 0.9% NaCl (w/v), #7634, Adcock Ingram) to remove surrounding blood. The brain regions of interest, namely the anterior cortex (AC), brainstem (BS), cerebellum (CB) and olfactory bulbs (OB), were then dissected, snap-frozen in liquid nitrogen (within 15 minutes postmortem) and stored at − 80°C until used.
Sample Type:Brain


Treatment ID:TR001576
Treatment Summary:The animals did not receive any treatment

Sample Preparation:

Sampleprep ID:SP001569
Sampleprep Summary:Brain regions were homogenized in the presence of internal standards using a vibration mill. Metabolite extraction was achieved using a biphasic Bligh–Dyer extraction method (methanol/water/chloroform, 2:1.8:2). The polar phases of biphasic extracts were used for LC-MS/MS analysis
Sampleprep Protocol Filename:GC_sample_prep_protocol.pdf

Combined analysis:

Analysis ID AN002464
Analysis type MS
Chromatography type Reversed phase
Chromatography system Agilent 1200
Column Agilent C18 Zorbax SB-AQ (150 x 2.1mm, 3.5um)
MS instrument type Triple quadrupole
MS instrument name Agilent 6410 QQQ
Units Area


Chromatography ID:CH001806
Instrument Name:Agilent 1200
Column Name:Agilent C18 Zorbax SB-AQ (150 x 2.1mm, 3.5um)
Chromatography Type:Reversed phase


MS ID:MS002284
Analysis ID:AN002464
Instrument Name:Agilent 6410 QQQ
Instrument Type:Triple quadrupole
MS Comments:The Agilent© MassHunter Workstation (v B02.01) and MassHunter Optimiser (v B02.01) software were used for data acquisition in the multiple reaction monitoring (MRM) configuration setting with parameters set for target amino acids, -derivatives, acylcarnitines, and isotopes. Data extraction was done using the Agilent© MassHunter Workstation software (v B06.00; Qualitative Analysis and Quantitative Analysis)