@sritchie73.bsky.social
British Heart Foundation Cambridge Centre for Research Excellence Fellow & Assistant Professor of Research in the Department of Public Health and Primary Care at the University of Cambridge https://scholar.google.com/citations?user=K8qTnLUAAA
My thought process here is that perhaps these trans-pQTL hotspots are reflecting some biological factor that is systematically affecting the binding chemistry across a large fraction of binding sites?
Quite possibly power - but then some of the trans-pQTL hotspots have really small p-values across many proteins (e.g. the APOE/NLRP12 locus on chromosme 19) in Sun et al 2018, which is only 2x the sample size here.
I'm quite struck by Figure 1 - there don't appear to be strong trans-pQTL hotspots like we typically see with affinity-based technologies. This makes me wonder if previous trans-pQTL hotspots reflect systematic epitope effects - is this something you've explored at all?
Suspense !
Our new #GWAS with MS #proteomics paper has been scheduled for publication in Nature Genetics on 27 November 2025 at 10:00 (London time) and will be available at the following URL: www.nature.com/articles/s41...
At #EASD and interested in learning about how polygenic risk scores can be use to improve prediction and prevention of type 2 diabetes? Come see my talk at 17:25 today in the Milan Hall as part of the EASD-ADA Joint Symposium. I'll also be around until Friday afternoon if anyone wants to chat.
⏰ 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 👇
prcomp() uses BLAS, which depending on the BLAS library and how R was compiled against it when R was installed will default to using all available cores.
Try adding the following code before your call to prcomp():
library(RhpcBLASctl)
blas_set_num_threads(1)
omp_set_num_threads(1)
Reminds me of this classic tweet:
Super excited to see beginning integration of PredictDB into OmicsPred!
We've annotated/deposited the GTExV8 gene expression predictors so they are now available alongside all the other multi-omic predictors at www.omicspred.org
More on its way... a wonderful collab with @hakyim.bsky.social & co!
Has Antony Green called the Eurovision winner yet? #eurovision #auspol #stillwaitingfortheprepolls
Estonia hands down
Feeling mildly emotional that this is Green’s last election coverage. He’s covered every Aus election I’ve ever seen, it won’t be the same without him #auspol
GPT has consumed too much assassins creed lore: assassinscreed.fandom.com/wiki/Genetic...
Our work on metabolic reaction fluxes as amplifiers and buffers of risk alleles for coronary artery disease is finally out in @molsystbiol.org !
www.embopress.org/doi/full/10....
A short thread on our key findings 🧵👇
📣 New from the lab: The contribution of genetic determinants of blood gene expression and splicing to molecular phenotypes and health outcomes www.nature.com/articles/s41...
Check out the INTERVAL RNAseq portal www.intervalrna.org.uk
Led by @alextokolyi.bsky.social & Elodie Persyn!
Wonderful to see our collaboration @astrazeneca.bsky.social @dphpc.bsky.social out! Identification of plasma proteomic markers underlying polygenic risk of T2D and related comorbidities @naturecomms.bsky.social www.nature.com/articles/s41...
Well done Doug Loesch, Dirk Paul, Abhishek Nag and co!
New pre-print led by @hwang_seongwon: "Human genetics suggests differing causal pathways from HMGCR inhibition to coronary artery disease and type 2 diabetes": www.medrxiv.org/content/10.1.... Brief thread follows:
Our latest Study just went online:
Comparative Analysis Between Olink-PEA and Alamar-NULISA Proteomic Technologies Applied to a Critically Ill COVID-19 Cohort
analyticalsciencejournals.onlinelibrary.wiley.com/doi/10.1002/...
Now's a good time for a reminder about the internet wayback machine: web.archive.org
Introducing a major upgrade to OmicsPred platform (www.omicspred.org) — a resource to enhance the accessibility and usability of genetic scores for multi-omic traits and their phenotypic associations. (1/N)
With accompanying editorial piece summarising and contextualising these findings written by myself: www.nature.com/articles/s44...
Out today in Nature Cardiovascular Research, Rasooly and colleagues utilise multiple sources of multi-omic evidence to identify new drug targets for heart failure with reduced and preserved ejection fraction: www.nature.com/articles/s44...
Clinical utility and implementation of polygenic risk scores for predicting cardiovascular disease academic.oup.com/eurheartj/ad...
A clinical consensus statement of the ESC Council on Cardiovascular Genomics, ESC Cardiovascular Risk Collaboration and European Association of Preventive Cardiology
A platform for the biomedical application of large language models https://www.nature.com/articles/s41587-024-02534-3 (read free: https://rdcu.be/d68Ih) MIT licensed https://github.com/biocypher/biochatter 🧬🖥️🧪
Excited to be tutoring at the Leena Peltonen School of Human Genetics on July 27-31, alongside a stellar crew. If you’re a late-stage or recently graduated PhD student this is an awesome opportunity to get 1:1 time with faculty at the cutting edge of genomics.
Apply by March 7th at lpshg.com
at first glance this just looks like ggplot but 's/geom/add/' 🤔
⏳ Just one more week to apply! 5 roles open in my group working on the Green Algorithms project: 3 research, a Software Engineer Lead and a Community manager/project coordinator
🌱 More details and links to all adverts there: www.green-algorithms.org/join-us/
Closing 25/11
#AcademicSky #SciSky
check out our new preprint led by Charles Zhou and supervised by Mengjie Chen and me doi.org/10.1101/2024... where we present scPrediXcan which integrates deep learning and single cell expression data into a powerful cell type specific TWAS framework
Announcing version 3.2.0 of the ukbnmr R package now available on CRAN: cran.r-project.org/web/packages...
This is a major update that makes the package compatible with the UK Biobank Research Analysis Platform and shows removal of technical variation on the full NMR data release coming Jan 2025
Modelling the impact of these in the wider UK population, we show that supplementing screening with conventional risk factors (i.e. SCORE2) with targeted follow-up with NMR scores and PRSs could increase the # of CVD events prevented from 201 to 370 per 100K screened
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