Chuffed to bits to see our OmicsPred resource paper just out @natgenet.nature.com! OmicsPred as a centralized resource for genetic prediction of multi-omic traits www.nature.com/articles/s41... Resource link: www.omicspred.org
Carles Foguet
@cfoguet.bsky.social
Català vivint a UK. Researcher at the BHF Cardiovascular Epidemiology Unit at Cambridge University. https://cfoguet.github.io/
Once again, OmicsPred is a team effort from UChicago (@hakyim.bsky.social), our Cambridge group (@mikeinouye.bsky.social @cfoguet.bsky.social @laurentgil33.bsky.social @yuxu.bsky.social) + many more! Stay tuned for a new tranche of scores out soon - submit yours at 🔗: www.omicspred.org/submit!
omicspred.org
Now OmicsPred.org is released to the wild via @natgenet.nature.com, read the updated version (more metadata descriptions, cross-platform PheWAS comparison)! 🔗: rdcu.be/YRma6QaXW7ea
rdcu.be
Sam Lambert@iamslambert.bsky.social · 4mo agoInterested 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...
Latest from our lab! A proteome-wide association study of cardiovascular diseases in 640,000 participants of multiple ancestries www.medrxiv.org/content/10.6... A truly global collaboration of computational and experimental researchers. h\t @yuxu.bsky.social, Doug Loesch, Henry Taylor among many!
A big day for ancestry-specific polygenic risk scores in the PGS Catalog, a phenome-wide atlas of scores for 241 traits (1501 PGS)! Check it out 🔗: www.pgscatalog.org/publication/...!
PGS Catalog - Chen HH, Nature (2025) (Publication)
The Polygenic Score (PGS) Catalog is an open database of published PGS and the relevant metadata needed to apply and evaluate them correctly.
pgscatalog.org
Nature@nature.com · 11mo agoNature research paper: Population-specific polygenic risk scores for people of Han Chinese ancestry go.nature.com/3WCMp4n
Review from the lab just out in Cell Genomics: Translating genome-wide association studies at multiple scales: Drug target prioritization, cellular architectures, and organ imaging www.cell.com/cell-genomic... Co-led by fab PhD students Benedetta Felici and Siyuan Chen!
Translating genome-wide association studies at multiple scales: Drug target prioritization, cellular architectures, and organ imaging
This review covers how the results of genome-wide association studies are now utilized at multiple scales, informing our etiological understanding at the levels of molecules, cells, and organs. It cov...
cell.com
Huge congrats to @xilinjiang.bsky.social (Wellcome fellow in the group) on his first senior author paper, in @natgenet.nature.com no less! 👏👏👏👏 Pleiotropic shared heritability quantifies the shared genetic variance of common diseases www.nature.com/articles/s41...
Pleiotropic shared heritability quantifies the shared genetic variance of common diseases - Nature Genetics
Pleiotropic shared heritability with bias correction (PHBC) estimates the genetic variance of a target disease that is shared with a set of auxiliary diseases. Applying PHBC to diseases in the UK Biob...
nature.com
Super chuffed to see our latest preprint is out: Polygenic risk of cardiovascular disease manifests in cardiac structure and function 👉 www.medrxiv.org/content/10.6... A collaborative study led by exceptional PhD student Benedetta Felici!
Happy to share our most recent GWAS meta-analysis of 249 circulating metabolic biomarkers (Nightingale Health platform) in up to 619,372 individuals. www.medrxiv.org/content/10.1...
@omicspred.bsky.social centralises imputation models from multiple resources (PredictDB, Zenodo, INTERVAL/UKB-trained scores) and multiple omics layers (transcriptomics, metabolomics, proteomics) to make analyses easier and more comprehensive, e.x. this multi-ancestry multi-omics MVP PheWAS!
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...
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
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
Important work for stratifying risk of heart failure in Europe. Prediction of incident heart failure in individuals without prior cardiovascular disease: the SCORE2-HF risk model academic.oup.com/eurheartj/ad...
BHF 4-Year Studentship - Closing Date 16 April 2026 www.cam.ac.uk/jobs/bhf-4-y...
BHF 4-Year PhD Studentships in Cardiovascular Disease Prevention
University of Cambridge, University of Edinburgh, Imperial College London and University of Oxford Applications are invited for up to 10 funded 4-year PhD studentships starting in October 2026, as
cam.ac.uk
Happy to share new manuscript I completed with @ee-reh-neh.bsky.social & @davisjmcc.bsky.social back in Melbourne. The work originally conceived by @ijbeasley.bsky.social focuses on how we can reconcile and meta-analyse eQTL studies across studies cohorts and ancestries. doi.org/10.64898/202...
Power is a major confounder in the analysis of cross-ancestry 'portability' in human eQTLs
The phenotypic effects of germline variants are often mediated through gene regulation. Expression quantitative trait loci (eQTLs) are genetic variants associated with changes in gene expression. Understanding how eQTLs vary across populations is essential for characterising the genetic and regulatory drivers of trait diversity. Meta-analysing eQTL studies from multiple populations enables more robust detection of eQTLs and can reveal regulatory mechanisms shaped by population-specific environmental or ancestry-related factors. However, across the multi-ancestry eQTL literature, a wide range of methods have been used to quantify eQTL portability across ancestry groups. Because different studies employ different portability metrics, it is challenging to form a coherent view of the regulatory landscape across populations. In this work, we analyse eQTL summary statistics from ten datasets matched on tissue type and sequencing technology. We compare portability metrics used previously and show that they can yield markedly different patterns of apparent regulatory conservation or divergence. We then examine the statistical determinants of portability across metrics and demonstrate that sample size, minor allele frequency, and linkage disequilibrium are major drivers of the observed differences in eQTL portability across studies. These findings highlight that differences in statistical power stemming from factors such as population size and allele frequency must be accounted for when evaluating eQTL portability. To address this issue, we introduce a new approach designed to correct for these factors when calling eQTL portability. Finally, we show that empirical Bayes multivariate adaptive shrinkage provides a powerful framework for meta-analysing multiple eQTL studies, with the ability to pool signals across populations to produce more robust effect-size estimates within each population. ### Competing Interest Statement The authors have declared no competing interest. National Health and Medical Research Council, https://ror.org/011kf5r70, Ideas Grant 2020501, Investigator Grant 1195595
doi.org
Irene Gallego Romero@ee-reh-neh.bsky.social · 6mo agoFinally, today's offering! www.biorxiv.org/content/10.6... This began life as a very different project which failed because we couldn't agree on defining eqtl sharing across cohorts. So two young members of the lab dug deeply into this - first @ijbeasley.bsky.social, then @patrickgibbs.bsky.social
Mother Language Day, yet they focus on the 24 "official" ones instead of the 200+ "minority" mother languages making up the true cultural diversity of Europe 🤦
European Parliament@europarl.europa.eu · 7mo agoOn International Mother Language Day, we celebrate the 24 official EU languages that ensure everyone can take part in democracy. Every language is a voice. Every voice shapes our Union. United in diversity.
Yesterday the UK Government published a data provision notice paving the way for coded GP data in England to be shared with consented cohorts like UK Biobank. Hear from Val, a UK Biobank participant on her hopes for the future.
Very much enjoyed the Festival of Genomics and BioData yesterday in London eventhough I could only be there a few hours! Highlight has to be meeting Prof Marta Cascante, a pioneer of metabolomics and using metabolic flux analysis to identify new metabolic drug targets! web.ub.edu/en/web/actua...
Professor Marta Cascante, honorary fellow of the Metabolomics Society
web.ub.edu
The STRIDES Trial: Largest ever trial (N~1,300,000) of interventions for blood donor vasovagal reactions (feeling faint and fainting) shows no benefit from four additional interventions www.thelancet.com/journals/lan... Simplifies the service, saves £££ and focuses time/effort elsewhere 👏👏👏
Preventive interventions for vasovagal reactions in whole blood donors: a cluster-randomised, stepped-wedge, crossover trial of 73 sites involving 1·4 million donors in England
Four interventions used to prevent donation-related vasovagal reactions showed no clear benefits compared with standard practices in England, suggesting potential policy implications for blood service...
thelancet.com
Federal law enforcement agents shot and killed a man in Minneapolis on Jan. 24 according to local police officials. DHS told Fox News that the man was “armed with a gun”. A video of the shooting appears to show that a gun was taken from the man before the first shot was fired. x.com/BillMelugin_...
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/
pgsc_calc: a reproducible workflow to calculate polygenic scores | PGS Catalog Calculator documentation.
The `pgsc_calc` workflow makes it easy to calculate a polygenic score
buff.ly
New paper alert! @sritchie73.bsky.social @mikeinouye.bsky.social & team found integrating genetic & metabolic blood tests with existing clinical data could enhance how doctors identify people at high risk of heart disease, leading to earlier prevention strategies Read more tinyurl.com/bp5tjck2
Combined clinical, metabolomic, and polygenic scores for cardiovascular risk prediction
AbstractBackground and Aims. Clinical biomarkers, nuclear magnetic resonance (NMR) metabolomics biomarker scores, and polygenic risk scores (PRS) have show
tinyurl.com
New PhD position in my lab at @uniofbath.bsky.social (with both @tweethinking.bsky.social & Dr Bethan Littleford-Colquhoun)! We're looking for someone keen on bioinformatics and microbiome evolution. Important info below on eligibility & URSA competition funding👇 www.findaphd.com/phds/project...
The overlapping microbiome: ecology, function and resilience beyond species boundaries at University of Bath on FindAPhD.com
PhD Project - The overlapping microbiome: ecology, function and resilience beyond species boundaries at University of Bath, listed on FindAPhD.com
findaphd.com
If I’m understanding this correctly, X is owned by a white nationalist who pays poor people of color in developing countries to pretend to be working class white Americans to scare other white Americans into being afraid poor people of color from developing countries are going to ruin America?
📣📣📣 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.
![Comic. Scatter chart with Emperor Palpatine character age on Y axis and Ian McDiarmid age during filming on X axis. Plot with descending arrow beginning from Return of the Jedi (emperor age 90, McDiarmid age 40) → Revenge of the Sith, Attack of the Clones, and The Phantom Menace (emperor age 50-70, McDiarmid age 50-60) → The Rise of Skywalker (cloned body, undefined age) with a gradient vertical line (McDiarmid age over 70) → Now (emperor age under 10, McDiarmid age over 80). [caption] To continue the trend, they should make a Star Wars movie where 81-year-old Ian McDiarmid plays the emperor as a toddler.](https://cdn.bsky.app/img/feed_thumbnail/plain/did:plc:cz73r7iyiqn26upot4jtjdhk/bafkreiddygrn45rhv3aktvxlsoc5e62uxrb2fxeojgauoe5i4j52l4rn7q)
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
⏰ Last couple of days to apply to join my group @Cambridge as a postdoc and work on the environmental (un)sustainability of AI! ⏳ Closing September 16th. ✏️ Apply here: tinyurl.com/2ukkp8yx Or learn more about what we do at www.lannelongue-group.org Initial examples of research projects below 👇
Research Associate*/Research Assistant in Sustainability of AI (Fixed Term)
An exciting opportunity has arisen for a talented researcher to join our team as part of the Green Algorithms Initiative, one of the leading academic teams in the field of sustainable computing. The
cam.ac.uk
KASIE HUNT: Over the summer you said, “There’s no vaccine that’s safe and effective”. Do you still believe that? RFK JR: “I never said that.” KASIE HUNT: “Play the clip.” RFK JR (clip): “There’s no vaccine that is safe and effective.” (March 2024) ht: @cwebbonline.com