Summary of Study ST001479
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 PR001003. The data can be accessed directly via it's Project DOI: 10.21228/M8210V This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST001479 |
| Study Title | Metabolomics of Ndufs4 KO brain regions (part - I) |
| Study Summary | Targeted LC-MS/MS analysis of amino acids and acylcarnitines in Ndufs4 KO and WT mouse anterior cortex (AC) |
| Institute | North-West University |
| Last Name | Louw |
| First Name | Roan |
| Address | Hofman Street |
| Roan.Louw@nwu.ac.za | |
| Phone | +27 18 299 4074 |
| Submit Date | 2020-09-09 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d |
| Analysis Type Detail | LC-MS |
| Release Date | 2021-09-10 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| 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 |
| Email: | Roan.Louw@nwu.ac.za |
| Phone: | +27 18 299 4074 |
Subject:
| Subject ID: | SU001553 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Genotype Strain: | Ndufs4 |
| Age Or Age Range: | 45-50 days |
| Gender: | Male |
| 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 |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Genotype |
|---|---|---|
| SA124960 | AC1 15 (15) | KO |
| SA124961 | AC1 16 (16) | KO |
| SA124962 | AC1 19 (19) | KO |
| SA124963 | AC1 12 (14) | KO |
| SA124964 | AC1 5 (E5) | KO |
| SA124965 | AC1 1 (E1) | KO |
| SA124966 | AC1 2 (E2) | KO |
| SA124967 | AC1 21 (21) | KO |
| SA124968 | AC1 9 (10) | KO |
| SA124969 | AC1 24 (24) | KO |
| SA124970 | AC2 38 (38) | KO |
| SA124971 | AC2 40 (41) | KO |
| SA124972 | AC2 41 (42) | KO |
| SA124973 | AC2 35 (35) R | KO |
| SA124974 | AC2 37 (36) | KO |
| SA124975 | AC2 27 (27) | KO |
| SA124976 | AC2 29 (29) | KO |
| SA124977 | AC2 32 (32) | KO |
| SA124978 | AC2 43 (3) | WT |
| SA124979 | AC2 44 (4) | WT |
| SA124980 | AC2 42 (40) | WT |
| SA124981 | AC2 39 (39) | WT |
| SA124982 | AC1 13 (12) | WT |
| SA124983 | AC1 14 (13) | WT |
| SA124984 | AC1 17 (17) | WT |
| SA124985 | AC1 18 (18) | WT |
| SA124986 | AC1 11 (11) | WT |
| SA124987 | AC1 10 (9) | WT |
| SA124988 | AC1 4 (5) | WT |
| SA124989 | AC1 6 (E6) | WT |
| SA124990 | AC1 7 (7) | WT |
| SA124991 | AC1 8 (8) | WT |
| SA124992 | AC1 20 (20) | WT |
| SA124993 | AC1 22 (22) | WT |
| SA124994 | AC2 31 (31) | WT |
| SA124995 | AC2 33 (1) | WT |
| SA124996 | AC2 34 (2) | WT |
| SA124997 | AC2 36 (37) r | WT |
| SA124998 | AC2 30 (30) | WT |
| SA124999 | AC2 28 (28) | WT |
| SA125000 | AC1 23 (23) | WT |
| SA125001 | AC2 25 (25) | WT |
| SA125002 | AC2 26 (26) | WT |
| SA125003 | AC1 3 (E3) | WT |
| Showing results 1 to 44 of 44 |
Collection:
| Collection ID: | CO001548 |
| 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. Mice strain: https://www.jax.org/strain/027058 |
| Sample Type: | Brain |
Treatment:
| Treatment ID: | TR001568 |
| Treatment Summary: | The animals did not receive any treatment |
Sample Preparation:
| Sampleprep ID: | SP001561 |
| 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 |
Combined analysis:
| Analysis ID | AN002455 |
|---|---|
| Analysis type | MS |
| Chromatography type | Reversed phase |
| Chromatography system | Agilent 1200 |
| Column | Agilent C18 Zorbax SB-AQ (150 x 2.1mm, 3.5um) |
| MS Type | ESI |
| MS instrument type | Triple quadrupole |
| MS instrument name | Agilent 6410 QQQ |
| Ion Mode | POSITIVE |
| Units | Area |
Chromatography:
| Chromatography ID: | CH001798 |
| Instrument Name: | Agilent 1200 |
| Column Name: | Agilent C18 Zorbax SB-AQ (150 x 2.1mm, 3.5um) |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS002275 |
| Analysis ID: | AN002455 |
| Instrument Name: | Agilent 6410 QQQ |
| Instrument Type: | Triple quadrupole |
| MS Type: | ESI |
| 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) |
| Ion Mode: | POSITIVE |
