ArticleEpigenetics & chromatin2019
Dam mutants provide improved sensitivity and spatial resolution for profiling transcription factor binding.
Article in Epigenetics & chromatin, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- Toward a systems view on RNA-binding proteins and associated RNAs in plants: Guilt by association.The Plant cell · 2023Article
- Elucidating the biology of transcription factor-DNA interaction for accurate identification of cis-regulatory elements.Current opinion in plant biology · 2022Review
- Single-cell profiling of transcriptome and histone modifications with EpiDamID.Molecular cell · 2022Article
- FlyORF-TaDa allows rapid generation of new lines for in vivo cell-type-specific profiling of protein-DNA interactions in Drosophila melanogaster.G3 (Bethesda, Md.) · 2021Article
- Tissue-specific DamID protocol using nanopore sequencing.Journal of biological methods · 2021Article
- Identification of determinants of differential chromatin accessibility through a massively parallel genome-integrated reporter assay.Genome research · 2020Article
- A High-Throughput Genome-Integrated Assay Reveals Spatial Dependencies Governing Tcf7l2 Binding.Cell systems · 2020Article
- A Multiplexed Barcodelet Single-Cell RNA-Seq Approach Elucidates Combinatorial Signaling Pathways that Drive ESC Differentiation.Cell stem cell · 2020Article
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Authors and funding
3 authors.
Funding
Abstract
DamID, in which a protein of interest is fused to Dam methylase, enables mapping of protein-DNA binding through readout of adenine methylation in genomic DNA. DamID offers a compelling alternative to chromatin immunoprecipitation sequencing (ChIP-Seq), particularly in cases where cell number or antibody availability is limiting. This comes at a cost, however, of high non-specific signal and a lowered spatial resolution of several kb, limiting its application to transcription factor-DNA binding. Here we show that mutations in Dam, when fused to the transcription factor Tcf7l2, greatly reduce non-specific methylation. Combined with a simplified DamID sequencing protocol, we find that these Dam mutants allow for accurate detection of transcription factor binding at a sensitivity and spatial resolution closely matching that seen in ChIP-seq.
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