Madhur Bain Singh

🚨 New paper out! In a collaboration across MVP, FinnGen & UK Biobank, we conducted a phenome-wide study of sex chromosome trisomies (SCT) in 1.5M participants. Findings reveal shared disease risks across SCT. 🔗 www.sciencedirect.com/science/arti...

Twin modelling reveals partly distinct genetic pathways to music enjoyment - Nature Communications Here, Bignardi et al. report on a study of over 9,000 Swedish twins that indicates the ability to enjoy music is influenced by multiple partly distinct genetic factors.

“What an odd thing“ wrote Oliver Sacks “to see an entire species playing with listening to meaningless tonal patterns, preoccupied for much of their time by what they call ‘music’...“. Our new paper, led by ace student @giacomobignardi.bsky.social, unpacks this puzzle from a genetic perspective. 🧪

Comparison of the multivariate genetic architecture of eight major psychiatric disorders across sex - Nature Genetics Genomic structural invariance, an extension of genomic structural equation modeling, identifies similarities and differences between males and females in the genetic architectures of eight psychiatric...

Out today, our method for comparing multivariate genetic architecture across groups of people, called Genomic Structural Invariance: www.nature.com/articles/s41...

(feat: @tuckerdrob.bsky.social @michelnivard.bsky.social @andrewgrotzinger.bsky.social @mijke.bsky.social @jorsmo.bsky.social et al.)

New preprint🌍 Our trans-ancestry GWAS in UK Biobank uncovers novel risk loci for major depression, improving genetic insights across populations. 🔗: www.medrxiv.org/content/10.1... @madhurbsingh.bsky.social @gentyae.bsky.social @pbb319.bsky.social timbigdeli.bsky.social @roseannpeterson.bsky.social

Insights from a methylome-wide association study of antidepressant exposure - Nature Communications The mechanism of currently prescribed antidepressants is incompletely understood. Here, the study identifies associations between antidepressant use and DNA methylation, highlighting shared signals ac...

Many thanks to all of the collaborators and funders (esp
@wellcometrust.bsky.social & @ukri.org) who made this DNA methylome-wide study of antidepressant exposure possible www.nature.com/articles/s41...

Excited to share a couple of new items (links below):
1. Our work on gene-environment interactions in the UKBiobank is up at the American Journal of Human Genetics
2. Our work on modeling ancient human population size history is up at Molecular Biology and Evolution

🚨NEW PAPER! Together with Wuno Akingbuwa (@wonuola.bsky.social) we developed a way to estimate non-linear genetic correlations. It didnt sit well with us that known non-linear relations (e.g. BMI and MDD with a famous U shaped ) are poorly captured in statistical genetics. 🧵

Prioritizing effector genes at trait-associated loci using multimodal evidence Nature Genetics - FLAMES is a machine learning approach combining variant fine-mapping, SNP-to-gene annotations and convergence-based gene prioritization scores to identify candidate effector genes...

Incredibly proud to see our latest work out in Nature Genetics: www.nature.com/articles/s41...

Here we share our FLAMES framework, which predicts the effector genes in GWAS loci with state-of-the-art precision🔥

Special thanks to @daniposthu.bsky.social

A full thread describing findings below!

New paper! Led by Kirsten J. M. van Hooijdonk & Jacqueline Vink, this study finds no bidirectional causal link between diet/physical activity & depression/anxiety using triangulation. No strong causal evidence! @zoereed.bsky.social @madhurbsingh.bsky.social
📖 doi.org/10.1017/S003...

Nice paper showing ~1/540 people have a sex chromosome trisomy from 3 large biobanks (UKB, FinnGen, MVP) comprising 1.5 million individuals along with their phenotypic impact.

www.medrxiv.org/content/10.1...

Genetic correlations between MDD and each neuroticism cut point. The line of best fit is shown, based on a linear regression model, with parameters estimated using generalized least squares (GLS).

Standardized results (with standard errors) for two-factor genomic structural equation model as estimated using GenomicSEM software.

Standardized results (with standard errors) for three-severity factor genomic structural equation model as estimated using GenomicSEM software.

Are mental disorders extreme manifestations of continuous traits or genetically distinct entities? We present Genomic Taxometric Analysis of Continuous and Case-Control data (GTACCC) for evaluating genetic continuity and differentiation of traits across the severity spectrum. Tweetorial coming soon.

Modern GWAS can identify 1000s of significant hits but it can be hard to turn this into biological insight. What key cellular functions link genetic variation to disease?

I'm very excited to present our new work combining associations and Perturb-seq to build interpretable causal graphs! A 🧵

King's launches the Atlas of Longitudinal Datasets to support mental health research Researchers at the Institute of Psychiatry, Psychology & Neuroscience (IoPPN) at King’s College London have launched a new free platform to allow people to discover hundreds of longitudinal mental hea...

King's College London launches the Atlas of Longitudinal Datasets, in partnership with @wellcometrust.bsky.social / @mqmentalhealth.bsky.social, a free platform with over 1,600 datasets, to support mental health research worldwide. 🌍

Read more and learn how to access: www.kcl.ac.uk/news/kings-l...

🚀 New paper by @madhurbsingh.bsky.social on smoking & DNA methylation via twin-based MR using @ntrbiopsy.bsky.social data! Supervised by Mike Neale, @jennyvandongen.bsky.social, & Conor Dolan. Co-authors: @dlapato.bsky.social, @charlesbreeze.bsky.social. 🔗 doi.org/10.1007/s106...

Thrilled to share some amazing news— @madhurbsingh.bsky.social, supervised by Roseann Peterson, PhD, and Michael C. Neale, PhD, has been awarded VCU VIPBG's Kenneth S. Kendler Award for Excellence in Predoctoral Research!

Article screenshot of a genome-wide association study of major depression published in the journal Cell

1/n Our multi-ancestry #GWAS meta-analysis of major depression is now published in @cellpress.bsky.social.

www.cell.com/cell/fulltex...

A thread 🧵:

GitHub - MichelNivard/awesome-complex-trait-genetics: A list of awesome tools for complex trait genetics. A list of awesome tools for complex trait genetics. - MichelNivard/awesome-complex-trait-genetics

🚨 This will become a curated list of awesome tools for complex trait genetics, **add yours**! it may become a review in which case those who contribute are invited as co-authors.

Tidyplots empowers life scientists with easy code-based data visualization https://www.biorxiv.org/content/10.1101/2024.11.08.621836v1 #rstats

New here? or logged back in recently? Find your old friends in statistical and psychiatric genetics in this starter pack, ill try to update frequently, let me know if you want to be added: go.bsky.app/9643dwo

@ent3c.bsky.social suggested we need a behaviour genetics starter pack, let me know who to add!

I couldn't spot a starter pack for rare disease / clinical genomics, so I started one: go.bsky.app/SUWZ9Hw

Very much a work in progress, and biased by who I have already found here, so please suggest people to add! Self-nominations encouraged.

#ClinicalInformatics #genomics #bioinformatics 🖥️🧬

Excited about this work from my PhD being presented by my advisor, Roseann Peterson, at #WCP2024 in MEX🇲🇽
“Empowering Genomic Discovery for Major Depression: A GWAS Workflow Across Ancestries”! 🌎🧬🧠
11/17, 12-1 PM, Station 1.
Advancing trans-ancestry GWAS for genetic insights!💡 #Genetics #Psychiatry

Don’t miss our poster at #WCP2024! 📊 Dive into “Exploring Depression Phenotypes Across Latin American Genomes” with the LAGC-MDD Working Group 🌎 on 11/16, 12-1 PM at Station 03. Join us to explore GWAS insights on MDD in Latin America! #Genomics #Psychiatry

🧬The Genetic Links to Anxiety and Depression @GLADStudy is on the #CatalogueMHM! 🧠 The study looks at the #riskfactors for #depression and #anxiety. Check it out here-> buff.ly/3Al8exO
@thaliaeley.bsky.social @psychgenomics.bsky.social @kcl.ac.uk @nihr.bsky.social

Home OpenMx Master Class is aimed to improve the skills of individuals who are already familiar with Structural Equation Modeling (SEM) and want to improve their understanding and capability to specify and...

Speaking of, this upcoming workshop is free online. You are also very welcome to visit us in Richmond. That would be stellar! 😇
vipbg.vcu.edu/events/works...

e.g., if you were using mxPath() to specify a path, you'd set free=TRUE and then specify some lbound and ubound values. Of course, you'd need a rationale to constrain the parameter within that range.
openmx.ssri.psu.edu/docs/OpenMx/...

I have only used it in OpenMx openmx.ssri.psu.edu/docs/OpenMx/...
e.g., to keep the correlation estimate between -1 and +1, or to keep the variance estimate positive.
But you can restrict any parameter estimate to be within a range (between "ubound" & "lbound")

@michelnivard.bsky.social, more info?

Setting upper and/or lower bounds for the estimate?

Congratulations, Dan (here, too)! 🥳