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ProteomicsDetermining DNA-protein binding affinities and specificities from crude lysates using a combined SILAC/TMT labeling strategy
Gene expression is driven by the binding of transcription factors to regulatory elements in the genome, such as enhancers and promoters. A powerful technique to study DNA-protein interactions is affinity purification followed by mass spectrometry. Classic affinity purifications coupled to quantitati...
ORGANISM(S): Homo sapiens (Human) 
2023-10-08 | PXD041674 | Pride
Tmt Silac Dna pulldowns Paqman 
ProteomicsBANC-seq to identify genome-wide transcription factor binding affinities to native chromatin
BANC-seq (Binding Affinities to Native Chromatin by sequencing) allows determination of absolute apparent binding affinites of transcription factors to native chromatin in a genome-wide manner. In this study, we establish the method and show that chromatin and DNA sequence define binding affinites o...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2023-02-09 | PXD038502 | Pride
Dna pulldowns Transcription factors Tmt Proteomes Binding affinity Absolute quantification 
ProteomicsReading ADP-ribosylation signalling using chemical biology and interaction proteomics
In this project, we describe a global, proteome-wide screening for ADP-ribosylation interactome. Our data reveals novel MAR and PAR readers. We identify both cell type-dependent and independent ADPr interactors. In addition, we quantify apparent binding affinities of large number of ADPr readers. We...
ORGANISM(S): Homo sapiens (Human) 
2021-11-02 | PXD024233 | Pride
Adpr-binding proteins Adp-ribosylation 
ProteomicsBANP is an essential transcription factor that opens chromatin and activates CpG island regulated genes
While the majority of RNA polymerase II initiation events in mammalian genomes take place within CpG island (CGI) promoters, our understanding of their regulation remains limited. Here we combine single-molecule footprinting with interaction proteomics to identify BANP as a critical CGI regulator an...
ORGANISM(S): Mus musculus (Mouse) 
2021-06-16 | PXD024794 | Pride
Cpg island Single-molecule footprinting Cgi promoters Banp Tf binding Paqman 
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