PXD007235

PXD007235 is an original dataset announced via ProteomeXchange.

Title	Extensive and systematic rewiring of histone post-translational modifications in cancer model systems
Description	Histone post-translational modifications (PTMs) generate a complex combinatorial code that regulate gene expression and nuclear functions, and whose deregulation has been documented in different types of cancers. Therefore, the availability of relevant culture models that can be manipulated and that retain the epigenetic features of the tissue of origin is absolutely crucial for studying epigenetic mechanisms underlying cancer, as well as for testing epigenetic drugs and uncovering possible epigenetic biomarkers. In this study, we took advantage of quantitative mass spectrometry to comprehensively profile histone PTMss in patient tumor tissues, primary cultures and cell lines from two representative tumor models, breast cancer and glioblastoma, revealing a dramatic and systematic rewiring of histone marks in cell culture conditions, which include a decrease of H3K27me3, H3K79me1/me2 and H3K9ac/K14ac, and an increase of H3K36me1/me2. While some changes occurr in short-term primary cultures, most of them are instead time-dependent and appear only in long-term cultures. Remarkably, such change mostly revert in cell line- and primary cell-derived in vivo xenograft models. Our results support the use of short-term cultures and xenografts models as the most representative models of in vivo epigenetic processes, and suggest cautions when using cell lines and long-term primary cultures for epigenetic investigations.
HostingRepository	PRIDE
AnnounceDate	2018-04-06
AnnouncementXML	Submission_2018-04-06_08:31:17.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
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-08-09 06:05:19	ID requested
⏵ 1	2018-04-06 08:31:18	announced

Noberini R, Osti D, Miccolo C, Richichi C, Lupia M, Corleone G, Hong SP, Colombo P, Pollo B, Fornasari L, Pruneri G, Magnani L, Cavallaro U, Chiocca S, Minucci S, Pelicci G, Bonaldi T, Extensive and systematic rewiring of histone post-translational modifications in cancer model systems. Nucleic Acids Res, 46(8):3817-3832(2018) [pubmed]

curator keyword: Biological, Biomedical

submitter keyword: cell culture, histone post-translational modifications, tissue, primary cells

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

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/2018/04/PXD007235

PRIDE project URI

• PRIDE
  1. PXD007235
     1. Label: PRIDE project
     2. Name: Extensive and systematic rewiring of histone post-translational modifications in cancer model systems