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Emma Dann

@emmamarydann.bsky.social

Postdoc fellow @ Stanford & Gladstone Institutes Core team @scverse-team.bsky.social Bringing the single-cell genomics in human complex trait genetics https://emdann.github.io/

24 Posts847 Follower486 Folgt
Emma Dann@emmamarydann.bsky.social · 4w ago

Our work on systematic perturb-seq of primary human T cells is now out in Cell 🎉 www.cell.com/cell/fulltex... It's been a privilege to work with @ronghuizhu.bsky.social between @jkpritch.bsky.social @marsonlab.bsky.social labs, with a dream-team of co-authors ❤️ Highlights in preprint thread👇

Genome-scale perturb-seq in primary human CD4+ T cells maps context-specific regulators of T cell programs and human immune traits

A dynamic atlas of gene regulation was generated by perturbing every expressed gene across 22 million primary human CD4+ T cells under resting conditions and following re-stimulation. The resulting ma...

cell.com

Emma Dann@emmamarydann.bsky.social · 9mo ago

Together with @ronghuizhu.bsky.social, we are thrilled to present our new perturb-seq study of 22M primary CD4+ T cells, across donors and timepoints – the result of a decade-long collaboration between the Marson @marsonlab.bsky.social and Pritchard @jkpritch.bsky.social labs 🧵 tinyurl.com/gwt2025

Huisheng (Julie) Zhu@huishengzhu.bsky.social · 6mo ago

Why do schizophrenia GWAS signals look so flat across the genome? In our recent preprint, we explored why psychiatric disorders — and, more broadly, brain-related traits involving the central nervous system — appear to have unusual genetic architectures. 🧵1/n

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Ana Carolina Leote@anacarolinaleote.bsky.social · 8mo ago

🧬 2026 Internship: Marioni Group @genentech.bsky.social Seeking PhD intern for Deep Learning on large-scale genetic screens (Perturb-seq/Optical). Focus: ML for single-cell + imaging to decode phenotypes. 📍 SSF (On-site) | 12-wk paid ⚠️ Apply via portal only: 🔗 bit.ly/45P7TQB #CompBio #AI #Genetics

2026 Summer Intern (Computational Sciences - Cluster of Excellence)

2026 Summer Intern (Computational Sciences - Cluster of Excellence) The Marioni group in the Computational Sciences (CS) department studies the molecular mechanisms of cell fate decisions in early dev...

roche.wd3.myworkdayjobs.com

Nikhil Milind@nikhilmilind.dev · 9mo ago

How well does TWAS estimate a gene’s direction of effect on a trait? We think of this as an important stress-test for the accuracy of TWAS. In a new pre-print, we find that TWAS gets the sign wrong around 20-30% of the time! doi.org/10.64898/202... 1/n

High false sign rates in transcriptome-wide association studies

Transcriptome-wide association studies (TWAS) are widely used to identify genes involved in complex traits and to infer the direction of gene effects on traits. However, despite their popularity, it r...

doi.org

Emma Dann@emmamarydann.bsky.social · 9mo ago

Together with @ronghuizhu.bsky.social, we are thrilled to present our new perturb-seq study of 22M primary CD4+ T cells, across donors and timepoints – the result of a decade-long collaboration between the Marson @marsonlab.bsky.social and Pritchard @jkpritch.bsky.social labs 🧵 tinyurl.com/gwt2025

Genome-scale perturb-seq in primary human CD4+ T cells maps context-specific regulators of T cell programs and human immune traits

Gene regulatory networks encode the fundamental logic of cellular functions, but systematic network mapping remains challenging, especially in cell states relevant to human biology and disease. Here, ...

tinyurl.com

Jonathan Pritchard@jkpritch.bsky.social · 10mo ago

GWAS has been an incredible discovery tool for human genetics: it regularly identifies *causal* links from 1000s of SNPs to any given trait. But mechanistic interpretation is usually difficult. Our latest work on causal models for this is out yesterday: www.nature.com/articles/s41... A short🧵:

Causal modelling of gene effects from regulators to programs to traits - Nature

Approaches combining genetic association and Perturb-seq data that link genetic variants to functional programs to traits are described.

nature.com

Mineto Ota@minetoota.bsky.social · 10mo ago

Thank you Alex! Excited to see our paper published in @nature.com ! Huge thanks to @jeffspence.github.io , @tkyzeng.bsky.social , @emmamarydann.bsky.social, @nikhilmilind.dev, @marsonlab.bsky.social, @jkpritch.bsky.social, and all the members of the Pritchard and Marson labs for your enormous help!

Causal modelling of gene effects from regulators to programs to traits

Nature - Approaches combining genetic association and Perturb-seq data that link genetic variants to functional programs to traits are described.

rdcu.be

Marson Lab@marsonlab.bsky.social · 10mo ago

Our latest collaboration with @jkpritch.bsky.social – led by joint post-doc Mineto Ota – is in @nature.com today: www.nature.com/articles/s41...

Roshni Patel@roshnipatel.bsky.social · 12mo ago

I'm recruiting a postdoc for my group (based in beautiful Eugene, OR). Please get in touch if you're interested, esp if you'd like to chat at #ASHG25!

Roshni Patel@roshnipatel.bsky.social · last yr.

We'll primarily work at the intersection of statistical and population genetics, and we also have active projects related to the ethical and social implications of human genetics (ELSI). Please get in touch if that's a combination that sounds interesting to you!

Emma Dann@emmamarydann.bsky.social · 12mo ago

En route to Boston for #ASHG25 #ASHG2025! 👉 I'll be presenting a poster on our new work on genome-wide perturb-seq screens in primary human T cells (5049W, Wed 2.30pm) 👉 you can hear me talk about it at the Industry Education session presented by Ultima Genomics (Thu 3pm) [1/2]

Jonathan Pritchard@jkpritch.bsky.social · last yr.

I have an opportunity to hire a staff scientist for my lab. Looking for someone with outstanding skillset in ML/statistics, genomics applications; interest in mentoring, strong publication record, PD experience required. Email CV to me+cc my assistant (see 'contact' on my website). Ad to follow.

Sophie Belman@sophiebelman.bsky.social · 2y ago

I’m racing a Half Ironman triathlon this June. 2km swim, 90km cycle, 20km run and raising money for the Meningitis Research Foundation. Meningitis has ~2.5 million cases and 250,000 deaths annually predominantly among children. Any donation would be great! gofund.me/a958252f

Donate to Half Iron(wo)man for Meningitis Research, organized by Sophie Belman

I will be racing my first Half Ironman triathlon in Zurich this June. It includ… Sophie Belman needs your support for Half Iron(wo)man for Meningitis Research

gofund.me

scverse@scverse.bsky.social · 2y ago

Don't forget to apply to the upcoming @scverse.bsky.social x @owkin.bsky.social hackathon - applications due this Friday, February 7th! 📆March 17-19, 2025 📍Owkin Office, Paris docs.google.com/forms/d/e/1F...

Scverse x Owkin Hackathon in Paris

We're pleased to announce the next Scverse Hackathon will take place in the Owkin offices in Paris from 17/03/2025 9am to 19/03/2025 1:30pm. This hackathon is a joint initiative between the scverse c...

docs.google.com

Florian Jug@florianjug.bsky.social · 2y ago

🚨🚨 MEGA JOB ALERT 🚨🚨 Independent Group Leader Positions in Computational Biology @humantechnopole.bsky.social! Are you ready to start your own lab? Do you know someone who is? Repost this + share with everyone who might want to know about it. Thanks!!! 🙏 More details below... check it out! 🧵 1/3

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Jonathan Pritchard@jkpritch.bsky.social · 2y ago

I posted a couple days ago about our new paper on building causal graphs from genetic associations + Perturb-seq. Here I want to expand on the value of using DIRECTIONAL information contained in LoF burden tests.🧵 [work led by @minetoota.bsky.social ] bsky.app/profile/jkpr...

Jonathan Pritchard@jkpritch.bsky.social · 2y ago

GWAS provides a unique tool in human biology as it can establish causal links from variants to trait. But interpretation is difficult as most effects flow through (unobserved) gene regulatory networks. Can we gain insight by linking to modern Perturb-seq data? www.biorxiv.org/content/10.1...

Emma Dann@emmamarydann.bsky.social · 2y ago

@minetoota.bsky.social set the groundwork for many ongoing projects in @jkpritch.bsky.social and Marson lab. Great to see this out!

Jonathan Pritchard@jkpritch.bsky.social · 2y ago

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 🧵