Phenome-wide Mendelian randomization mapping the influence of the plasma proteome on complex diseases biorxiv.org/content/10.110… New MR paper suggest proteins with MR and colocalization evidence is more likely to predict drug trial success

The MRC IEU GWAS database is now being hosted on Oracle Cloud. Should see some major performance improvements. Access it now via MR-Base and github.com/MRCIEU/TwoSamp…. Big thanks to Oracle Cloud and Phil Bates

Guidelines on performing Mendelian randomization investigations written by an all-star line-up of MR researchers are now available on Wellcome Open Research: wellcomeopenresearch.org/articles/4-186… - represents a consensus statement after 12+ months of deliberation. Comments welcome!

EpiGraphDB v0.3.0 is released today, with ~10x expansion of data to support #triangulation of #epidemiology evidence and #datamining. Check out the latest and greatest features at epigraphdb.org!

Our multi-omics study of COVID-19 drug targets are online now 😃 medrxiv.org/content/10.110…

Paper from Matt Lyon MRC IEU describing an adapted variant call format (VCF) for efficient and robust storage of GWAS summary statistics disq.us/t/3p55pl6

We built the OpenGWAS resource to be a free and open platform to support work on GWAS summary data. Much of it is based on extensive feedback on MR-Base from both internal and external colleagues. Paper here: bit.ly/2DRbHGT, key points below:

OpenGWAS (gwas.mrcieu.ac.uk) is a harmonised database of complete GWAS summary data (126 billion associations, almost 15000 complete datasets) with programmatic connections to a range of third party analytical tools.

Data sources - To date, the summary data have been manually harvested/pooled from various GWAS consortia and biobanks. Many thanks to these studies who have made their summary data available!

QC process - we align the non-effect allele to the human genome reference sequence; and annotate the positions with dbSNP identifiers. Example QC report: gwas.mrcieu.ac.uk/datasets/ukb-b…

Cloud querying - elasticsearch to store the data, hosted in collaboration with Oracle Cloud Infrastructure. We worked hard to optimise queries, allowing rapid search by position, rsid, range, p-value. This can be done in R, python or through a RESTful API.

Local querying - All the data can also be downloaded as GWAS VCF files. There is a need for a storage format that is unambiguous, self contained and performant for querying. We designed this for large scale analysis on compute clusters bit.ly/33VbOfL

Analytical tools - The gwasglue R package connects the local or cloud data sources, as well as cloud hosted LD reference panels, to a range of third party tools. Fine mapping, colocalisation, MR, genetic correlations, PheWAS, etc. mrcieu.github.io/gwasglue/

Continued data harvesting - for new GWAS results that are published, upload them to the EBI GWAS catalog and we will pull them in from there. For unpublished results, or large batches, we have pipelines to do that. Get in touch here: github.com/mrcieu/opengwa…

Huge thanks to Medical Research Council, Oracle Cloud and Wellcome for funding much of this, and team (gibran hemani Tom Gaunt Ben Elsworth Matt Lyon @prime2 Tessa Alexander Jon Hallett and others) for making a hopefully useful community resource

MR-Base was down due to server outage with our cloud hosting provider. Should be working now!

Were experiencing problems with the mrbase web app at the moment. You can continue to access the data via github.com/MRCIEU/TwoSamp… and OpenGWAS while we work on a fix

We've made some major changes to mrbase and the twosamplemr R package. Details here: mrcieu.github.io/TwoSampleMR/ar…

Join me at #ElasticCC where I'll be talking about how we use Elasticsearch for OpenGWAS. This is @Elastic’s free technical event from the community, for the community — happening from Feb 26 - 27 ela.st/community-conf…

New postdoc opportunity in Health Data Science at the MRC Integrative Epidemiology Unit (@mrcieu) at University of Bristol. Get in touch if interested! bristol.ac.uk/jobs/find/deta…