The new v2.3.0 release of pgsc_calc makes our calculator tool fully compatible with scores from the updated @omicspred.bsky.social resource (www.omicspred.org)! Stay tuned for future updates to v3 that improve WGS compatibility next. Github 🔗: github.com/PGScatalog/p...

Release v2.3.0 · PGScatalog/pgsc_calc

Changelog Improvements Add partial OmicsPred support by @smlmbrt in #498 Bug fixes Fix compatibility with strict syntax in Nextflow v26 Fix quarto report generation with recent Fusion filesystem...

github.com

Sam Lambert@iamslambert.bsky.social · 3mo ago

Interested in applying multi-omics imputation or TWAS/PWAS approaches to your data? Frustrated by the models being spread across multiple resources? Enter OmicsPred: a centralised resource for genetic prediction of multi-omic traits! 🔗 : www.omicspred.org 📃 : www.medrxiv.org/content/10.6...

Was fun being back in Toronto last week to celebrate the 20th Anniversary of the @donnellycentre.bsky.social (thedonnellycentre.utoronto.ca/news/looking...). Cool opportunity to present and think about my academic journey and switching fields since my PhD! But best was catching up w/ old colleagues!

Interested in applying multi-omics imputation or TWAS/PWAS approaches to your data? Frustrated by the models being spread across multiple resources? Enter OmicsPred: a centralised resource for genetic prediction of multi-omic traits! 🔗 : www.omicspred.org 📃 : www.medrxiv.org/content/10.6...

☝️☝️☝️ Huge collaborative efforts from @iamslambert.bsky.social @cfoguet.bsky.social @laurentgil33.bsky.social @hakyim.bsky.social @yuxu.bsky.social @sritchie73.bsky.social Elodie Persyn, Sofía Salazar-Magaña and @omicspred.bsky.social!

OmicsPred (www.omicspred.org) has been almost completely overhauled with new front-end, back-end, features, pheWAS and multi-omic scores (>3 million and counting).

OmicsPred as a centralised resource for genetic prediction of multi-omic traits

Genetic prediction of multi-omic data has emerged as a cost-effective alternative to direct omics profiling, particularly useful for identifying molecular features associated with disease susceptibili...

medrxiv.org

Together with Haky Im and colleagues at the University of Chicago, we brought together two leading resources for transcriptome/proteome/metabolome-wide association studies: OmicsPred and PredictDB. www.medrxiv.org/content/10.6... www.omicspred.org

Wonderful to see the new integrated OmicsPred resource now preprinted at medrxiv: "OmicsPred as a centralised resource for genetic prediction of multi-omic traits" www.medrxiv.org/content/10.6... OmicsPred: www.omicspred.org

So anyone got any good holiday plans whilst access to both UK Biobank and Our Future Health are suspended?

a man in a suit and tie is standing on a beach near the ocean .

Alt: Mr Bean standing on the beach waiting for access to cohort data

media.tenor.com

It’s amazing the level of copyright infringement that ChatGPT will do for images (celebrity likeness, brands, album covers)! At least text can have citations, the images feel like stolen work.

777 studies, 745 with summary statistics - the @genesandhealth.bsky.social WES study is now in the GWAS Catalog, aiming to improve health outcomes for South Asian populations. Go explore 👇 www.ebi.ac.uk/gwas/publica...

We are recruiting a PI in biomedical data science at @bakerresearchau.bsky.social in Melbourne! A fantastic opportunity and do get in touch if any q's! www.seek.com.au/job/91619982...

Laboratory Head in Biomedical Data Science Job in Melbourne VIC - SEEK

Lead a biomedical data science lab, secure funding, publish research and collaborate globally to drive impactful cardiometabolic outcomes.

seek.com.au

🚨 Funded PhD Opportunity (Oct 2026 start) 10 funded 4-year PhD studentships are available through @thebhf.bsky.social doctoral training programme focused on preventing cardiovascular disease through innovative, data-driven approaches 👉Info on how to apply tinyurl.com/yc7j5s67 @dphpc.bsky.social

BHF 4-Year Studentship - Closing Date 16 April 2026 www.cam.ac.uk/jobs/bhf-4-y...

Are you an emerging clinical academic leader in respiratory medicine? Come and join @vpd-hlri.bsky.social and @royalpapworth.bsky.social and build your career! Get in touch if you’d like to discuss. www.cam.ac.uk/jobs/assista...

🚨Wanted…emerging clinical academic leader in cardiology to join @vpd-hlri.bsky.social and @royalpapworth.bsky.social. Get in touch if you’d like to discuss the role. We’d love to hear from you! www.cam.ac.uk/jobs/assista...

We hope it's easy to use with tutorials for UKB (pgsc-calc.readthedocs.io/en/v3-alpha....) & All of Us (pgsc-calc.readthedocs.io/en/v3-alpha.... )! But feel free to contact us on Github: github.com/PGScatalog/p...! With that, happy holidays from the PGS Catalog team! 🎁 🎄

The new alpha only implements PGS scoring at the moment, but the roadmap will reimplement our existing genetic ancestry tools! Lot's of under-the-hood optimisation using python (zarr, dash), and it only takes VCF or BGEN input atm. github.com/PGScatalog/p...

Wish it was easier to calculate PGS in trusted research environments (TRE) like DNAnexus or the All of Us workbench? Us to! We've been hard at work on a new version of pgsc_calc to make it more scalable in those TREs! Introducing pgsc_calc v3.0.0-alpha.1: pgsc-calc.readthedocs.io/en/v3-alpha.1/

Just published @ Eur Heart J: Combined clinical, metabolomic, and polygenic scores for cardiovascular risk prediction academic.oup.com/eurheartj/ad... tl;dr these next-gen risk factors could boost the number of CVD events prevented by +80% while keeping treatment efficiency (NNT) the same.

Wonderful contributions from many... tagging in bsky's I know @cfoguet.bsky.social @xilinjiang.bsky.social @yuxu.bsky.social @sritchie73.bsky.social @iamslambert.bsky.social @aidanbutty.bsky.social @stevesphd.bsky.social

📣📣📣 Excited for our lab's latest preprint, led by Chief Ben-Eghan! www.medrxiv.org/content/10.1... tl;dr We identify protein vQTLs in multiple ancestries then use MVMR to show independent effects of mean & variance on disease, suggesting targeting protein variance could have therapeutic potential.

Stay tuned here for upcoming updates to pgsc_calc (github.com/PGScatalog/p...), our tool for reproducible PGS calculation. Our next version aims to increase the scalability to WGS data in cloud trusted research environments (e.g. All of Us).

Another month and lots of new & useful data added to www.PGSCatalog.org! Including new multi-ancestry insulin resistance scores, a score tailored for heart failure in East Asian individuals & more!

🚨 Countdown to #ASHG25: Predicted Effector Gene standard is coming! 🚨 Join us and be part of the conversation! 📌 Poster Oct 16 | 2:30–4:30 | Poster Hall 🗓️ Session Oct 17 | 11:45–1:15 | Room 259A Learn more: kpnashg2025.wordpress.com/pegs-workshop/

PEGs Workshop

Friday, October 17th | 11:45AM – 1:15PM | Convention Center room 259A The meeting will open with an introduction (Noel Burtt), include a recap of the landscape analysis (Laura Harris), presentation…

kpnashg2025.wordpress.com

ICYMI 👉 Quantifying the fairness of polygenic risk scores: our modelling and analysis for CVD risk prediction www.medrxiv.org/content/10.1... Overall PRS fairness levels similar to or better than traditional predictors (age, sex, BP, lipids) h\t @iamslambert.bsky.social @clairecoffey.bsky.social

Current polygenic risk scores are unlikely to exacerbate unfairness in cardiovascular disease risk prediction

Background Current cardiovascular disease (CVD) risk prediction models place many individuals in an intermediate risk category where clinical decision-making remains uncertain, highlighting a critical...

medrxiv.org

Our new paper is out, in which we developed an approach to transform Polygenic Scores (PGSs) into disorder probabilities (i.e., the absolute lifetime disorder risk). Below a thread 👇 open access link: rdcu.be/eIjvC

Algorithmic fairness metrics have made big inroads in the AI/ML fields to investigate model bias. A clever PhD student (@clairecoffey.bsky.social) thought, why don't you see these methods applied to CVD risk prediction or polygenic risk scores? Enter our new preprint: www.medrxiv.org/content/10.1...

Current polygenic risk scores are unlikely to exacerbate unfairness in cardiovascular disease risk prediction

Background: Current cardiovascular disease (CVD) risk prediction models place many individuals in an intermediate risk category where clinical decision-making remains uncertain, highlighting a…

medrxiv.org

Algorithmic fairness metrics have made big inroads in the AI/ML fields to investigate model bias. A clever PhD student (@clairecoffey.bsky.social) thought, why don't you see these methods applied to CVD risk prediction or polygenic risk scores? Enter our new preprint: www.medrxiv.org/content/10.1...

Current polygenic risk scores are unlikely to exacerbate unfairness in cardiovascular disease risk prediction

Background: Current cardiovascular disease (CVD) risk prediction models place many individuals in an intermediate risk category where clinical decision-making remains uncertain, highlighting a…

medrxiv.org

Awesome work by @clairecoffey.bsky.social @iamslambert.bsky.social @sritchie73.bsky.social Lisa Pennells and Angela Wood

PRS are well know to have variable performance across ancestries, frequently with a European bias. We looked closely at fairness of PRS for CVD risk prediction, both with PRS on it's own and in an integrated risk score... Our results were surprising... 👉 www.medrxiv.org/content/10.1...

Current polygenic risk scores are unlikely to exacerbate unfairness in cardiovascular disease risk prediction

Background: Current cardiovascular disease (CVD) risk prediction models place many individuals in an intermediate risk category where clinical decision-making remains uncertain, highlighting a critica...

medrxiv.org