PXD007132

PXD007132 is an original dataset announced via ProteomeXchange.

Title	Global profiling of protein-DNA and protein-nucleosome binding affinities using quantitative mass spectrometry
Description	Interaction proteomics studies have provided fundamental insights into multimeric biomolecular assemblies and cell-scale molecular networks. Significant recent developments in mass spectrometry-based interaction proteomics have been fueled by rapid advances in label-free, isotopic, and isobaric quantitation workflows. Here, we report a quantitative protein-DNA and protein-nucleosome binding assay that uses affinity purifications from nuclear extracts coupled with isobaric chemical labeling and mass spectrometry to quantify apparent binding affinities proteome-wide. We use this assay with a variety of DNA and nucleosome baits to quantify apparent binding affinities of monomeric and multimeric transcription factors and chromatin remodeling complexes.
HostingRepository	PRIDE
AnnounceDate	2018-05-02
AnnouncementXML	Submission_2018-05-02_01:36:03.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Matthew Makowski
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2017-07-26 01:48:45	ID requested
⏵ 1	2018-05-02 01:36:05	announced

Makowski MM, Gr, ä, we C, Foster BM, Nguyen NV, Bartke T, Vermeulen M, Global profiling of protein-DNA and protein-nucleosome binding affinities using quantitative mass spectrometry. Nat Commun, 9(1):1653(2018) [pubmed]

curator keyword: Biological

submitter keyword: DNA-protein interactions, transcription, chromatin, binding affinity

Michiel Vermeulen
contact affiliation	Department of Molecular Biology Radboud Institute for Molecular Life Sciences Radboud University Nijmegen 6500 HB the Netherlands
contact email	michiel.vermeulen@science.ru.nl
lab head
Matthew Makowski
contact affiliation	Radboud University
contact email	matthew.makowski.m@gmail.com
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/2018/05/PXD007132

PRIDE project URI

• PRIDE
  1. PXD007132
     1. Label: PRIDE project
     2. Name: Global profiling of protein-DNA and protein-nucleosome binding affinities using quantitative mass spectrometry