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A comprehensive review on enhancers and Covid gene prioritisation are published

Two papers from our lab in one news article:

* Helen’s and Mikhail’s long review about enhancers and their communication with promoters (>520 refs!) published in Cell Mol Life Sci.

* Our work with Covid HGI consortium, prioritising the genes using their Covid severity GWAS meta-analysis data and Capture Hi-C, published in Front Genet. Co-led by Michiel Thiecke (a former PhD student in the lab, now at Enhanc3D Genomics) and Emma Yang (a former MSc student in the lab, now at MRC HGU). Co-supervised by Helen and Mikhail.

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Our guide to Capture Hi-C analysis is published

Our invited paper “Detecting chromosomal interactions in Capture Hi-C data with CHiCAGO and companion tools” is finally out at Nature Protocols (after 3 months in typesetting)!

Led by Paula (one of the lead authors of the original Chicago), Helen and Lera (postdocs in the lab), with invaluable contributions from other present and former lab members and collaborators.

For context, see also this Q&A on our institute’s website.

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Joe joins the lab

Joe Ellaway has joined the lab for his (fully remote) MSc project in bioinformatics. He will be working on the computational prediction of enhancer-promoter contacts capitalising on existing models and Capture Hi-C data. Welcome Joe – sorry we don’t have a chance to meet you offline!

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Enhanc3D Genomics and our group contribute to COVID-19 GWAS interpretation

In collaboration with Enhanc3D Genomics Ltd, we have linked non-coding GWAS SNPs associated with COVID-19 susceptibility and severity with their putative target gene based on 3D chromosomal conformation in blood cells.

For this analysis, we have used the COGS approach and Promoter Capture Hi-C data from our earlier study (Javierre et al., Cell 2016). The GWAS data are coming from the COVID-19 Host Genetics Initiative that we have joined for this task.

Our data are currently available at https://osf.io/k2mxe/ and will evolve with the next releases of the GWAS meta-analysis dataset. Our results will also be posted on the www.covid19hg.org website in due course.

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