PXD024799 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Histone post-translational modification analysis from low-abundance clinical samples |
Description | We streamlined the protein extraction procedure from low-amount clinical samples and tested and implemented different in-gel digestion strategies, obtaining a protocol that allows the analysis of the most common histone PTMs from laser microdissected tissue areas containing as low as 1000 cells. We then applied this protocol to breast cancer patient tissue sections in two proof-of-concept experiments, identifying differences in histone marks in heterogeneous regions selected by either morphological evaluation or MALDI-imaging profiling. These results demonstrate that analyzing histone PTMs from very small tissue areas and detecting differences from adjacent tumor regions is technically feasible, opening the way for the investigation of epigenetic features in the context of tissue and tumor heterogeneity. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-07 |
AnnouncementXML | Submission_2024-10-07_13:38:20.525.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Roberta Noberini |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; 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 | 2021-03-17 11:14:00 | ID requested | |
⏵ 1 | 2024-10-07 13:38:21 | 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: laser microdissection, breast cancer,histone post-translational 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
- PXD024799
- Label: PRIDE project
- Name: Histone post-translational modification analysis from low-abundance clinical samples