PXD006178

PXD006178 is an original dataset announced via ProteomeXchange.

Title	A quantitative proteomic based approach to study the genistein induced epigenetic reprogramming in MDA-MB231 cells
Description	Epidemiological data indicate that consumption of soy-based food significantly reduces the cancer risk in human through interaction with estrogen receptors and the ‘phytoestrogen’ genistein present in the soy is responsible for this chemopreventive activity. The epigenome regulatory effect of genistein also reported but the key mechanism behind this effect remain elusive. In this current project, we reported the epigenome modulation effect of genistein using MDA-MB231 cells. Cells were treated with low-dose genistein for >1 month and the stable epigenetic alterations were analyzed by partial MNase digestion and TMT-based quantitative proteomics based chromatome mapping approach. We identified a total of 3177 chromatin-bound proteins with high confidence, including 882 proteins that displayed altered binding topology after cell conditioning with genistein. Prolonged phytochemical exposure permanently modified the binding topology of the key epigenetic regulators and preserved their binding topology in untreated progeny. Genistein induced altered epigenome modulation negatively regulates the expression of cell proliferation genes and suppress cell growth. In contrast, previously exposed cells displayed reduced expression of DNA repair genes and enhanced genotoxic stress upon genistein withdrawal.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:05:05.462.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Bamaprasad Dutta
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-03-27 03:33:52	ID requested
1	2018-07-05 04:06:28	announced
⏵ 2	2024-10-22 04:05:13	announced	2024-10-22: Updated project metadata.

10.1002/pmic.201700474;

Dutta B, Park JE, Qing ITY, Kon OL, Sze SK, Soy-Derived Phytochemical Genistein Modifies Chromatome Topology to Restrict Cancer Cell Proliferation. Proteomics, 18(16):e1700474(2018) [pubmed]

curator keyword: Biomedical

submitter keyword: epigenome, epigenetics, DNA repair, TMT,Genistein, chromatome, heterochromatin, epigenetic reprogram, euchromatin, quantitative proteomics, chromatin

Siu Kwan Sze
contact affiliation	School of Biological Sciences Division of Structural Biology and Biochemistry Nanyang Technological University, 60 Nanyang drive, Singapore 637551
contact email	sksze@ntu.edu.sg
lab head
Bamaprasad Dutta
contact affiliation	Nanyang Technological University
contact email	bama0001@e.ntu.edu.sg
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/2018/07/PXD006178

PRIDE project URI

• PRIDE
  1. PXD006178
     1. Label: PRIDE project
     2. Name: A quantitative proteomic based approach to study the genistein induced epigenetic reprogramming in MDA-MB231 cells