PXD018764

PXD018764 is an original dataset announced via ProteomeXchange.

Title	Inverted chromatin immunoprecipitation identifies Tcf1 as a negative regulator of Foxp3 expression
Description	Regulatory T (Treg) cells are important regulators of the immune system and have versatile functions for the homeostasis and repair of tissues. They express the forkhead box transcription factor Foxp3 as a lineage-defining protein. In mature Treg cells, the Foxp3 core promoter is unmethylated indicating that this area could harbor a transcription factor complex to initiate or repress gene expression, respectively. We used an unbiased method to identify Foxp3-promoter-binding transcription factors (TFs) by inverted chromatin immunoprecipitation (IP) followed by quantitative mass spectrometry. We identified several candidate factors which showed Foxp3-promoter suppressive capacity, one of which was T-cell factor 1 (Tcf1). Using viral overexpression and CRISPR/Cas knockout studies, we identified Tcf1 as a repressor of Foxp3 expression in primary conventional CD4 T cells (Tconv). In Tcf1-deficient animals, increased levels of Foxp3intermediateCD25negative T cells were identified in secondary lymphoid tissues, implicating that Tcf1 protects Foxp3-negative T cells from inadvertent Foxp3 expression.
HostingRepository	PRIDE
AnnounceDate	2020-05-26
AnnouncementXML	Submission_2020-05-26_03:00:46.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Mahmoudreza Rafiee
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2020-04-23 05:27:58	ID requested
⏵ 1	2020-05-26 03:00:47	announced

Delacher M, Barra MM, Herzig Y, Eichelbaum K, Rafiee MR, Richards DM, Tr, ä, ger U, Hofer AC, Kazakov A, Braband KL, Gonzalez M, W, ö, hrl L, Schambeck K, Imbusch CD, Abramson J, Krijgsveld J, Feuerer M, Quantitative Proteomics Identifies TCF1 as a Negative Regulator of Foxp3 Expression in Conventional T Cells. iScience, 23(5):101127(2020) [pubmed]

submitter keyword: Regulatory T (Treg) cells, Foxp3-promoter, T-cell factor 1 (Tcf1)

Jeroen Krijgsveld
contact affiliation	Proteomics of Stem Cells and Cancer (B230) German Cancer Research Center (DKFZ) Heidelberg University Medical Faculty
contact email	j.krijgsveld@dkfz-heidelberg.de
lab head
Mahmoudreza Rafiee
contact affiliation	The Francis Crick Institute
contact email	rafieem@crick.ac.uk
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/2020/05/PXD018764

PRIDE project URI

• PRIDE
  1. PXD018764
     1. Label: PRIDE project
     2. Name: Inverted chromatin immunoprecipitation identifies Tcf1 as a negative regulator of Foxp3 expression