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Hughes Group Profile picture
Hughes Group
@FoldingGenome
A group with a keen interest in gene regulation, chromatin folding, and nuclear organization. Managed by @DownesDamien
Mar 3, 2020 • 8 tweets • 2 min read
Our latest pre-print, exploring the ways 3C methods can be improved to generate high-resolution interaction profiles for 1000’s of genes, is out now!

#generegulation #3Dgenome

(key findings below in emojis)

biorxiv.org/content/10.110… Using a mixture of human and mouse cells we found up to 30% of ligations in standard in situ 3C libraries are BETWEEN nuclei! 😱🔊😱
Feb 19, 2020 • 8 tweets • 3 min read
As well as developing 3C techniques we develop software to design and analyse 3C experiments. We’ve put together a suite of tools “The Capture Compendium” to take you from idea to publication. The pre-print is now on bioRxiv (1/7)

biorxiv.org/content/10.110… Capsequm2 with easy filtering on AltSort helps you design probes to target your region of interest. (2/7)

apps.molbiol.ox.ac.uk/CaptureC/cgi-b…
Nov 18, 2019 • 7 tweets • 2 min read
In our latest pre-print a talented PhD student (Martin Larke) developed a new method, scaRNA-seq, to examine the role of enhancers in regulating transcription initation and pausing.

biorxiv.org/content/10.110… scaRNAseq (Think Simba's uncle) enriches for single short (<300nt) capped RNA molecules. Using it you can simultaneously identify transcription start and pause sites.
Oct 24, 2019 • 6 tweets • 3 min read
We're very proud to finally share our work tackling the best way to decode GWAS hits.

biorxiv.org/cgi/content/sh… 1) We use the fundemental regulatory building blocks, promoters, ehancers, and boundaries, to identify key cell types.