PXD021089 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | greenCUT&RUN: a rapid and efficient genome profiling approach for transcription and chromatin regulatory proteins |
Description | Chromatin modifiers, transcription factors and cofactors regulate gene expression through engagement with chromatin and DNA, which can be detected by a variety of genomic techniques. Here, we describe a novel method ‘greenCUT&RUN’ for genome-wide profiling of transcription regulatory factors, which has higher sensitivity, resolution, accuracy and reproducibility than existing methods, whilst assuring specificity as assessed for the gene specific transcription factors NFY and c-FOS, and for the basal transcription factor TBP. Our strategy begins with tagging the protein of interest with GFP and utilizes a GFP-specific nanobody fused to MNase to profile genome-wide binding events. Since the nanobody targets GFP, the greenCUT&RUN approach eliminates dependency on protein-specific antibodies, which makes it widely applicable. To examine, if GFP-tagged proteins form complex with known interactors and GFP did not interfere in the formation of protein complex, mass spectrometry was performed. |
HostingRepository | PRIDE |
AnnounceDate | 2021-01-13 |
AnnouncementXML | Submission_2021-01-12_23:39:01.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Marc Timmers |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Orbitrap Fusion Lumos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2020-08-24 09:06:20 | ID requested | |
⏵ 1 | 2021-01-12 23:39:01 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: NFYA, FOS, HeLa, GFP-tagged proteins, Affinity purification, Nanobody, Enhancer |
Contact List
H. Th. Marc Timmers |
contact affiliation | 1. German Cancer Consortium (DKTK) partner site Freiburg, German Cancer Research Center (DKFZ), 69120 Heidelberg, Germany 2. Department of Urology, Medical Center-University of Freiburg, 79106 Freiburg, Germany |
contact email | m.timmers@dkfz-heidelberg.de |
lab head | |
Marc Timmers |
contact affiliation | German Cancer Consortium (DKTK), partner site Freiburg German Cancer Research Center (DKFZ) Foundation under Public Law c/o Department of Urology Zentrale Klinische Forschung (ZKF) Medical Center-University of Freiburg Breisacher Str. 66, 79106 Freiburg, Germany |
contact email | m.timmers@dkfz-heidelberg.de |
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/2021/01/PXD021089 |
PRIDE project URI |
Repository Record List
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[ - ]
- PRIDE
- PXD021089
- Label: PRIDE project
- Name: greenCUT&RUN: a rapid and efficient genome profiling approach for transcription and chromatin regulatory proteins