PXD025949
PXD025949 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Quantification of oxidative modification of mouse serum albumin by MRM-HR |
Description | After a week of acclimatization, 8-week-old mice were randomly divided into 4 groups consisting of more than 8 mice per group, and subjected to varying total body irradiation (TBI) doses of 0, 0.5, 1 or 3 Gy of X-rays (150 kVp, 20 mA, 0.5-mm aluminum and 0.3-mm copper filters) at a dose rate of 1.0 Gy/min using an MBR-1520R X-ray generator (Hitachi Medical, Tokyo, Japan). Peripheral blood was harvested 24 h after TBI from orbital venous plexus of mice anesthetized using isoflurane (Powerful Isoful; Zoetis, London, UK) by capillary tube, and placed at room temperature for at least 30 min to allow blood-clotting. Sera was collected by centrifugation at 1,200 ×g for 10 min and stored at - 80°C until the analysis. In addition, Sera collected from non-irradiated mice was subjected to varying TBI doses of 0, 0.5, 1 or 3 Gy of X-rays and incubated at 37°C for 24 h and stored at - 80°C until the analysis. On the basis of the result of the information-dependent acquisition, an assay for a high-resolution multiple reaction monitoring (MRM-HR) experiment targeted to the serum albumin oxidative modification was developed using Skyline software (MacCoss Lab, University of Washington, WA). The transitions of MRM-HR targeting each peptide were shown in Table 3. A TOF-MS scan in the mass range of 400-2,250 Da with 0.1 sec accumulation time was acquired followed by the product ion of target peptide precursors mass with 100 ms accumulation time. Collision energies were calculated with the rolling collision energy as in the information-dependent acquisition experiment. For MRM-HR data analysis, MultiQuant 3.0 Software (AB Sciex) was used to calculate integrated area of each peptide. All peak selections were checked manually after the automated matches. |
HostingRepository | jPOST |
AnnounceDate | 2022-05-12 |
AnnouncementXML | Submission_2023-01-05_21:54:37.080.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Yota Tatara |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
ModificationList | S-carboxamidomethyl-L-cysteine; N6-acetyl-L-lysine; alpha-amino acetylated residue; 2-pyrrolidone-5-carboxylic acid (Gln); 2-pyrrolidone-5-carboxylic acid (Glu); L-methionine sulfoxide; phosphorylated L-histidine; O-phospho-L-serine; O-phospho-L-threonine; O4'-phospho-L-tyrosine |
Instrument | TripleTOF 6600 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2021-05-11 19:54:26 | ID requested | |
1 | 2022-05-11 08:00:19 | announced | |
2 | 2022-09-18 02:14:37 | announced | 2022-09-18: Updated FTP location. |
⏵ 3 | 2023-01-05 21:54:37 | announced | 2023-01-06: Updated PubMed. |
Publication List
Yamaguchi M, Tatara Y, Nugraha ED, Sato Y, Miura T, Hosoda M, Syaifudin M, Tokonami S, Kashiwakura I, Serum Proteomic and Oxidative Modification Profiling in Mice Exposed to Total Body X-Irradiation. Antioxidants (Basel), 11(9):(2022) [pubmed] |
Keyword List
submitter keyword: mouse, serum, MRM-HR |
Contact List
Ikuo Kashiwakura | |
---|---|
lab head | |
Yota Tatara | |
contact affiliation | Hirosaki University |
dataset submitter |
Full Dataset Link List
jPOST dataset URI |
Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.jpostdb.org/JPST001167/ |