PXD039229

PXD039229 is an original dataset announced via ProteomeXchange.

Title	Spatiotemporal and global profiling of DNA-protein interactions enables discovery of low-affinity transcription factors
Description	Precise dissection of DNA-protein interactions is essential for elucidating recognition basis, dynamics, and gene regulation mechanism. However, global profiling of weak and dynamic DNA-protein interactions remains a long-standing challenge. Here, we establish light-induced lysine (K) enabled crosslinking (LIKE-XL) strategy for spatiotemporal and global profiling of DNA-protein interactions. Harnessing the unique abilities to capture weak and transient DNA-protein interactions, we demonstrate that LIKE-XL enables discovery of low-affinity transcription factors (TFs)-DNA interactions via sequence-specific DNA baits, determining the binding sites for TFs previously unachieved. More importantly, we successfully decipher the dynamics of TF subproteome in response to drug treatment in time-resolved manner, and find new downstream target TFs from drug perturbations, providing insights into their dynamic transcriptional networks. The LIKE-XL offers a novel and complementary method to expand the DNA-protein profiling toolbox and map accurate DNA-protein interactomes previously inaccessible via noncovalent strategies, for better understanding of protein functions in health and disease.
HostingRepository	iProX
AnnounceDate	2023-01-03
AnnouncementXML	Submission_2023-05-07_21:15:10.739.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Linhui Zhai
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2023-01-03 18:46:04	ID requested
1	2023-01-03 19:59:49	announced
⏵ 2	2023-05-07 21:15:11	announced	2023-05-08: Update publication information.

Guo AD, Yan KN, Hu H, Zhai L, Hu TF, Su H, Chi Y, Zha J, Xu Y, Zhao D, Lu X, Xu YJ, Zhang J, Tan M, Chen XH, Spatiotemporal and global profiling of DNA-protein interactions enables discovery of low-affinity transcription factors. Nat Chem, 15(6):803-814(2023) [pubmed]

submitter keyword: Spatiotemporal, DNA-protein interaction, crosslinking, transcription factor

Minjia Tan
contact affiliation	Shanghai Institute of Materia Medica
contact email	mjtan@simm.ac.cn
lab head
Linhui Zhai
contact affiliation	Shanghai Institute of Materia Medica
contact email	zhailinhui@simm.ac.cn
dataset submitter

iProX dataset URI