PXD040860 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Machine learning reveals limited contribution of trans-only encoded variants to the HLA-DQ immunopeptidome |
Description | HLA-DQ molecules can be formed as both cis and trans variants. So far, the progress for predicting HLA-DQ antigen presentation has been limited. In addition, the contribution of trans-only variants in shaping the HLA-DQ immunopeptidome remains largely unresolved. Here, we address these issues by integrating state-of-the-art immunoinformatics data mining models with large volumes of high-quality HLA-DQ specific immunopeptidomics data. The analysis demonstrated a highly improved predictive power and molecular coverage for models trained with these novel HLA-DQ data and a limited to no contribution for trans-only HLA-DQ variants to the overall HLA-DQ immunopeptidome. |
HostingRepository | PRIDE |
AnnounceDate | 2023-11-14 |
AnnouncementXML | Submission_2023-11-14_08:47:58.973.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD040860 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Hooman Yari |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | phosphorylated residue; monosodium salt; acetylated residue; monohydroxylated residue; deamidated residue |
Instrument | TripleTOF 5600 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2023-03-14 08:58:03 | ID requested | |
1 | 2023-05-10 15:54:09 | announced | |
⏵ 2 | 2023-11-14 08:48:07 | announced | 2023-11-14: Updated project metadata. |
Publication List
Nilsson JB, Kaabinejadian S, Yari H, Peters B, Barra C, Gragert L, Hildebrand W, Nielsen M, Machine learning reveals limited contribution of trans-only encoded variants to the HLA-DQ immunopeptidome. Commun Biol, 6(1):442(2023) [pubmed] |
10.6019/PXD040860; |
Keyword List
submitter keyword: Machine learning, Immunopeptidome, HLA-DQ |
Contact List
William Hildebrand |
contact affiliation | University of Oklahoma Health Sciences Center |
contact email | william-hildebrand@ouhsc.edu |
lab head | |
Hooman Yari |
contact affiliation | University of Oklahoma Health Sciences Center |
contact email | hooman-yari@ouhsc.edu |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD040860
- Label: PRIDE project
- Name: Machine learning reveals limited contribution of trans-only encoded variants to the HLA-DQ immunopeptidome