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Excited to see my project at @UniofOxford finally published at @NatureGenet ! Huge thanks to my co-authors @simon_r_myers @danjlawson @marchini @g_hellenthal @linoafferreira @ShiSinan , and the reviewers/editors. Read the publication here: nature.com/articles/s41588-0… 🚀🎉
Sile Hu retweeted
If you are interested in the use of single-cell data to map drivers of infertility, have a look at this preprint from the excellent Ipsita Agarwal and others!
biorxiv.org/content/10.64898…
We show how unpaired chromosomes generate aneuploidy, and map new genetic drivers.
Sile Hu retweeted
New work from us pooling together clinical sequencing data to identify large effect common risk variants for rare cancer types. This included a novel HLA locus that interacts with HPV infection to increase Anal Cancer risk.
New preprint led by Hrushikesh Loya, Leo Speidel, and I where we introduce GhostBuster! biorxiv.org/content/10.64898…
Our method uses genealogies to find "ghost" ancestries hidden within DNA. We find both modern humans, Neanderthals formed as mixtures of two ancient hominin groups
Sile Hu retweeted
Very interesting and rich work by @hrushikesh_loya @leo_speidel @simon_r_myers and others has many interesting findings. I want to highlight this figure, which is similar to the model David recently proposed. Can’t wait to read it more deeply
Genome-wide genealogies reveal deep admixtures forming modern humans.
Funny name to call the method for "GhostBuster"
biorxiv.org/content/10.64898…
Sile Hu retweeted
Nice article in the New York Times (archive.is/LiQsj) on Akbari et al. Nature finding a large number of novel loci under selection in ancient DNA data. Here's what I wrote when asked for comment:
Sile Hu retweeted
New work from our group developing a method to estimate the molecular heritability of longitudinal traits (e.g. disease onset, progression, or death). Many traits appear to be a genetic mixture of onset/liability and progression components. See Kodi's thread for more:
Excited to share our preprint introducing COXMM! COXMM is a Cox proportional hazard mixed model for estimating the heritability of time-to-event (TTE)/longitudinal traits. 🧵1/10
Work with @SashaGusevPosts and @sr_sankararaman.
doi.org/10.64898/2026.02.16.…
Sile Hu retweeted
New method from our group for identifying disease-mediating genes using perturb-seq, eQTL, and GWAS data. Check out the thread:
Happy to share our new preprint from @SashaGusevPosts and @nmancuso_ labs! We introduce Mr. PEG, a framework integrating perturbational screens, eQTL, and GWAS data to identify mediating genes for complex traits. (1/n) medrxiv.org/content/10.64898…
Sile Hu retweeted
High false sign rates in transcriptome-wide association studies biorxiv.org/content/10.64898… #biorxiv_genetic
Sile Hu retweeted
I wrote about the bizarre case of Herasight, the embryo selection company going all in on eugenics.
Sile Hu retweeted
Modern GWAS can identify 1000s of significant hits but it can be hard to turn this into biological insight.
I'm excited to share our new work combining genetic associations and Perturb-seq to build interpretable causal graphs, out today in @Nature:
Sile Hu retweeted
Excited to share our latest work on the factors that determine what genes we find (and don't find!) in GWAS and burden tests.
We describe a critical concept that we call *specificity*.
Led by Jeff Spence and Hakhamanesh Mostafavi:
How do GWAS and rare variant burden tests rank gene signals?
In new work @Nature with Jeff Spence, @jkpritch, and our wonderful coauthors we find the key factors are what we call Specificity, Length, and Luck!
🧬🧪🧵
nature.com/articles/s41586-0…
Sile Hu retweeted
Very happy to share our new paper now on @medrxivpreprint: “Genetic risk effects act in sets”, a great effort led my PhD student @JolienRietkerk, and performed together with collaborators @andywdahl, @AndrewSchork, @jonathan_flint1 etc. Thread 1/n
Sile Hu retweeted
Happy to share that our work from the @nmancuso_ lab is out in @NatureGenet! We developed SuShiE, a multiancestry fine-mapping method for molecular traits. doi.org/10.1038/s41588-025-0…
Sile Hu retweeted
Postdoc position in my group in Tokyo!
Please get in touch if you are interested.
And happy to discuss projects - ranging from developing new methods to analysis of new genomes that we are now sequencing in the lab.
riken.jp/en/careers/research…
Lab page: speidellab.github.io/
Sile Hu retweeted
Mutation-selection-drift balance models of complex diseases biorxiv.org/content/10.1101/… #biorxiv_genetic
Sile Hu retweeted
I'm very happy that our paper on admixture in deep human evolution is out now in Nature Genetics!
nature.com/articles/s41588-0…
Thanks very much to my PhD supervisors Aylwyn Scally and Richard Durbin for their support throughout
Sile Hu retweeted
VERY excited to announce a pre-print that represents the culmination of several years of work*: “On ARGs, pedigrees, and genetic relatedness matrices”
doi.org/10.1101/2025.03.03.6…
Led by @BrieucLehmann with contributions from @epigenci @LukeAnderTroc @jeromekelleher @petrelharp
Sile Hu retweeted
A General Framework for Branch Length Estimation in Ancestral Recombination Graphs biorxiv.org/content/10.1101/… #biorxiv_evobio