PXD004271

PXD004271 is an original dataset announced via ProteomeXchange.

Title	Nucleation of DNA Repair Factors by FOXA1 Links DNA Demethylation and Transcriptional Pioneering
Description	We report that the winged helix transcription factor FOXA1 is unexpectedly associated with components of single and double stranded-DNA repair complexes. Biochemical studies and high-throughput approaches validated the hierarchical composition of this FOXA1-nucleated machinery and revealed the dependency on FOXA1 for global targeting of the key repair polymerase POLB. Genome-wide DNA methylomes at single-base resolution demonstrated that FOXA1-DNA repair complex is functionally linked to DNA demethylation in a lineage specific fashion. Loss-of-function studies indicate that a significant portion of FOXA1-bound regions display localized reestablishment of methylation and that the subsets with most consistent hypermethylation are represented by active promoters and enhancers that also exhibit the greatest depletion of POLB following FOXA1 removal. Consistently, forced expression of FOXA1 commits its binding sites to an active DNA demethylation in a POLB dependent manner. Finally, we showed that FOXA1-associated DNA demethylation is tightly coupled with genomic targeting of estrogen receptor and estrogen responsiveness. Together, our results link FOXA1-associated DNA demethylation to its transcriptional pioneering.
HostingRepository	PRIDE
AnnounceDate	2017-06-13
AnnouncementXML	Submission_2017-06-13_07:35:40.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yu Zhang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ

Revision	Datetime	Status	ChangeLog Entry
0	2016-06-03 03:06:23	ID requested
1	2016-06-08 07:58:15	announced
2	2016-07-08 00:30:25	announced	Updated project metadata.
⏵ 3	2017-06-13 07:35:42	announced	Updated publication reference for PubMed record(s): 27500525.

Zhang Y, Zhang D, Li Q, Liang J, Sun L, Yi X, Chen Z, Yan R, Xie G, Li W, Liu S, Xu B, Li L, Yang J, He L, Shang Y, Nucleation of DNA repair factors by FOXA1 links DNA demethylation to transcriptional pioneering. Nat Genet, 48(9):1003-13(2016) [pubmed]

curator keyword: Biomedical

submitter keyword: Human, LC-MSMS

Yongfeng Shang
contact affiliation	Peking University Health Science Center
contact email	yshang@hsc.pku.edu.cn
lab head
Yu Zhang
contact affiliation	Peking University Health Science Center
contact email	zhang_yu@hsc.pku.edu.cn
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/2016/06/PXD004271

PRIDE project URI

• PRIDE
  1. PXD004271
     1. Label: PRIDE project
     2. Name: Nucleation of DNA Repair Factors by FOXA1 Links DNA Demethylation and Transcriptional Pioneering