PXD018509 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | The analysis of SNT differential proteins after intervention UC based on proteomics |
Description | Orbitrap Fusion (Thermo Fisher Scientific) LC-MS/MS analyses were performed on an Easy-nLC 1000 liquid chromatography system (Thermo Fisher Scientific) coupled to an Orbitrap Fusion via a nano-electrospray ion source. Tryptic peptides were dissolved with a loading buffer (acetonitrile and 0.1% formic acid), and were eluted with a flow rate of 350 nL/min. Survey scans were acquired after an accumulation of 5×105 ions in the Orbitrap for m/z 300-1,400 using a resolution of 120,000 at m/z. The top speed data-dependent mode was selected for fragmentation in the cell at a normalized collision energy of 32%, and fragment ions were then transferred into the ion trap analyzer with the AGC target at 5×103 and maximum injection time at 35 ms. The dynamic exclusion of previously acquired precursor ions was enabled at 18 s. The Proteome Discoverer 1.4.1.14 was used for analysis of the protein spectrum. Oxidation (Methionine) and acetylation (Protein-N term) were chosen as variable modifications, cysteine carbamidomethylation was chosen as a fixed modification. Two missed cleavage sites for trypsin were allowed. The intensity-based absolute quantification (iBAQ)-based protein quantification were performed by an in-house software. The interaction of SNT-related differentially expressed proteins was investigated by STRING 11.0 (https://string-db.org). The differentially expressed protein interaction network (high reliability, interaction score > 0.4, PPI enrichment P-value < 1.0×10 -16) was selected for the analysis. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-22 |
AnnouncementXML | Submission_2024-10-22_05:28:23.240.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | enhui Ji |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
ModificationList | acetylated residue |
Instrument | Orbitrap Fusion |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2020-04-14 01:52:38 | ID requested | |
1 | 2021-09-09 01:46:10 | announced | |
⏵ 2 | 2024-10-22 05:28:30 | announced | 2024-10-22: Updated project metadata. |
Publication List
10.3389/fphar.2020.01337; |
Ji E, Wang T, Xu J, Fan J, Zhang Y, Guan Y, Yang H, Wei J, Zhang G, Huang L, Systematic Investigation of the Efficacy of Sinitang Decoction Against Ulcerative Colitis. Front Pharmacol, 11():1337(2020) [pubmed] |
Keyword List
submitter keyword: SNT,Proteomics, Differential protein, UC |
Contact List
Hongjun Yang |
contact affiliation | Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences |
contact email | hongjun0420@vip.sina.com |
lab head | |
enhui Ji |
contact affiliation | Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences |
contact email | 2477651964@qq.com |
dataset submitter | |
Full Dataset Link List
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.pride.ebi.ac.uk/pride/data/archive/2021/09/PXD018509 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD018509
- Label: PRIDE project
- Name: The analysis of SNT differential proteins after intervention UC based on proteomics