PXD006027

PXD006027 is an original dataset announced via ProteomeXchange.

Title	PAT-H-MS coupled with laser microdissection to study histone post-translational modifications in selected cell populations from pathology samples
Description	Aberrations in histone post-translational modifications (hPTMs) have been linked with various pathologies, including cancer, and could represent not only useful biomarkers, but also suggest possible targetable epigenetic mechanisms. We have recently developed an approach, termed pathology tissue analysis of histones by mass spectrometry (PAT-H-MS), that allows performing a comprehensive and quantitative analysis of histone H3 PTMs from formalin-fixed paraffin-embedded pathology samples. Despite its great potential, the application of this technique is limited by tissue heterogeneity. In this study, we implemented the PAT-H-MS approach by coupling it with techniques aimed at reducing sample heterogeneity and selecting specific portions or cell populations within the samples, such as manual macrodissection and lased micro-dissection (LMD). When applied to the analysis of a small set of breast cancer samples, LMD- PAT-H-MS allowed detecting more marked changes between Luminal A and Triple Negative patients as compared with the classical approach.
HostingRepository	PRIDE
AnnounceDate	2017-07-17
AnnouncementXML	Submission_2017-07-17_04:29:39.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; trimethylated residue; acetylated residue; dimethylated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2017-03-06 01:53:29	ID requested
⏵ 1	2017-07-17 04:29:40	announced

Noberini R, Longuesp, é, e R, Richichi C, Pruneri G, Kriegsmann M, Pelicci G, Bonaldi T, PAT-H-MS coupled with laser microdissection to study histone post-translational modifications in selected cell populations from pathology samples. Clin Epigenetics, 9():69(2017) [pubmed]

curator keyword: Technical, Biomedical

submitter keyword: histone post-translational modifications, PAT-H-MS, laser microdissection, proteomics, epigenetic marker, formalin-fixed paraffin embedded, mass spectrometry

Tiziana Bonaldi
contact affiliation	European Institute of Oncology, Italy
contact email	tiziana.bonaldi@ieo.it
lab head
Roberta Noberini
contact affiliation	Istituto Italiano di Tecnologia
contact email	roberta.noberini@iit.it
dataset submitter

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/2017/07/PXD006027

PRIDE project URI

• PRIDE
  1. PXD006027
     1. Label: PRIDE project
     2. Name: PAT-H-MS coupled with laser microdissection to study histone post-translational modifications in selected cell populations from pathology samples