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
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD021089
- Label: PRIDE project
- Name: greenCUT&RUN: a rapid and efficient genome profiling approach for transcription and chromatin regulatory proteins