PXD007132 is an
original dataset announced via ProteomeXchange.
Dataset Summary
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 |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2017-07-26 01:48:45 | ID requested | |
⏵ 1 | 2018-05-02 01:36:05 | announced | |
Publication List
Makowski MM, Gr, รค, 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] |
Keyword List
curator keyword: Biological |
submitter keyword: DNA-protein interactions, transcription, chromatin, binding affinity |
Contact List
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 | |
Full Dataset Link List
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 |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD007132
- Label: PRIDE project
- Name: Global profiling of protein-DNA and protein-nucleosome binding affinities using quantitative mass spectrometry