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Wajd Manadre

As seen in: BioRxiv
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Articles

Protein massively parallel binding assay reveals transcription factor binding determinants

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By Offir Lupo, Sagie Brodsky, Tamar Jana Lang, Wajd Manadre
| BioRxiv
Abstract Transcription factors select their genomic binding sites in genomes depending on their DNA binding domain (DBD) but also on regions outside the DBD (nonDBD). However, it remains challenging to define these determinants within nonDBDs and reveal their mechanism of action. Towards this, we introduce here an in-vivo method for parallel analysis of thousands of designed peptides for binding a DNA sequence of interest (Protein Massively Parallel Binding Assay, pMPBA).
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Massively Parallel Binding Assay (MPBA) reveals limited transcription factor binding cooperativity, challenging models of specificity

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By Sagie Brodsky, Tamar Jana Lang, Wajd Manadre, Matan Vidavski
| BioRxiv
Abstract DNA binding domains (DBDs) within transcription factors (TFs) recognize short sequence motifs that are highly abundant in genomes. In vivo, TFs bind only a small subset of motif occurrences, which is often attributed to the cooperative binding of interacting TFs at proximal motifs. However, large-scale testing of this model is still lacking.
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