PXD024745 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Comparison of in-gel digestion methods for histone PTM analysis |
Description | In order to optimize the histone digestion procedure for low-abundance clinical samples, we compared different in-gel digestion protocols. Histones are usually digested in-gel using “Arg-C-like” strategies, which involve chemical acylation of lysines followed by trypsin digestion (17). Acylated lysines are not recognized by trypsin, which -as a consequence- cuts only at the C-terminus of arginines and generates peptides of suitable length for MS analysis. We compared four Arg-C-like protocols: 1) D3 protocol (deuterated acetic anhydride as acylating agent); 2) PRO protocol (propionic anhydride as acylating agent); 3) PRO-PRO protocol (propionic anhydride as acylating agent and peptide N-terminal derivatization); 4) PRO-PIC protocol (propionic anhydride as acylating agent and phenyl-isocyanate as peptide N-terminal derivatization). We also used an Arg-C in solution digestion as a reference, and tested the performance of the methods with decreasing sample amounts. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-07 |
AnnouncementXML | Submission_2024-10-07_13:38:02.396.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Roberta Noberini |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | monomethylated residue; acetylated residue; dimethylated residue; N6,N6,N6-trimethyl-L-lysine |
Instrument | Q Exactive HF; Q Exactive Plus |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-03-15 08:24:26 | ID requested | |
⏵ 1 | 2024-10-07 13:38:03 | announced | |
Publication List
Noberini R, Savoia EO, Brandini S, Greco F, Marra F, Bertalot G, Pruneri G, McDonnell LA, Bonaldi T, Spatial epi-proteomics enabled by histone post-translational modification analysis from low-abundance clinical samples. Clin Epigenetics, 13(1):145(2021) [pubmed] |
10.1186/s13148-021-01120-7; |
Keyword List
ProteomeXchange project tag: EPIC-XS |
submitter keyword: epigenetics,histone post-translationa modification |
Contact List
Tiziana Bonaldi |
contact affiliation | European Institute of Oncology |
contact email | tiziana.bonaldi@ieo.it |
lab head | |
Roberta Noberini |
contact affiliation | Istituto Europeo di Oncologia |
contact email | roberta.noberini@ieo.it |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD024745
- Label: PRIDE project
- Name: Comparison of in-gel digestion methods for histone PTM analysis