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PXD024745

PXD024745 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleComparison of in-gel digestion methods for histone PTM analysis
DescriptionIn 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.
HostingRepositoryPRIDE
AnnounceDate2024-10-07
AnnouncementXMLSubmission_2024-10-07_13:38:02.396.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterRoberta Noberini
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListmonomethylated residue; acetylated residue; dimethylated residue; N6,N6,N6-trimethyl-L-lysine
InstrumentQ Exactive HF; Q Exactive Plus
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-03-15 08:24:26ID requested
12024-10-07 13:38:03announced
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 affiliationEuropean Institute of Oncology
contact emailtiziana.bonaldi@ieo.it
lab head
Roberta Noberini
contact affiliationIstituto Europeo di Oncologia
contact emailroberta.noberini@ieo.it
dataset submitter
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Dataset FTP location
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