iiinova — where your digital self keeps evolving

Reposted by Tami Gjorgjieva

Jeff Spence @jeffspence.github.io · 14/09/2026

@roshnipatel.bsky.social and I wrote about using biobanks to learn about evolution, and how those findings shape interpretations of association studies. We focused on estimating evolutionary constraint and relating relating selection on variants to selection on traits and include open questions.

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Reposted by Tami Gjorgjieva

Romain Lopez @biologicalml.org · 29/05/2026

We built a joint experimental and computational platform for scalable multi-modal single-cell chemical screens — profiling RNA, protein (including phospho-signaling), and chromatin accessibility responses to thousands of small molecule perturbations in parallel. www.biorxiv.org/content/10.6...

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Reposted by Tami Gjorgjieva

Matthew Aguirre @aguirre404.bsky.social · 23/05/2026

Happy to share that this is now out in Cell Genomics and a featured paper for Multi-Journal Submission from @cellpress.bsky.social — many thanks to the editorial team + our reviewers! Short recap + some further thoughts on the paper ⬇️ [1/7] www.cell.com/cell-genomic...

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Tami Gjorgjieva @tamigj.bsky.social · 22/05/2026

Today is the last day to apply‼️ Thank you everyone for the incredible interest so far! We are especially looking for more folks with experience or willingness to learn and support trainees in metagenomics, microbiome, and/or bacterial/viral genetics 🧬. Spread the word!

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Tami Gjorgjieva @tamigj.bsky.social · 18/05/2026

The first step toward truly globalizing our genomic research is developing capabilities for genomic research worldwide. Doing this work with THGO has been one of the most fulfilling aspects of my PhD, and I'm excited to have more of us involved with it! (5/5)

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Tami Gjorgjieva @tamigj.bsky.social · 18/05/2026

If you are interested in volunteering as a mentor, please apply ASAP at forms.gle/mBEZs98z4XMU... and no later than Friday, May 22. (We really appreciate early applications as we are actively matching mentors to mentees based on needs/expertise.) (4/n)

forms.gle

MERIT Mentor Interest Form 2026

Hey there, Thanks for your interest in serving as a mentor for the MERIT (Mentorship and Research Individualized Training) program between Stanford and the Tanzania Human Genetics Organization. The go...

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Tami Gjorgjieva @tamigj.bsky.social · 18/05/2026

After a successful pilot, we are now expanding our program and looking for ~30 mentors! Researchers across career stages (RAs, PhDs, postdocs, staff scientists) and institutions are encouraged to apply! The program will run between June 1 and July 31, 2026. (3/n)

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Tami Gjorgjieva @tamigj.bsky.social · 18/05/2026

At Stanford, we are collaborating with the Tanzania Human Genetics Organization (THGO, thgo.or.tz) to deliver the MERIT (Mentorship and Research Individualized Training) program, where we match mentees from East Africa with mentors to work on a specific research analysis over 8 weeks. (2/n)

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Tami Gjorgjieva @tamigj.bsky.social · 18/05/2026

Hi Genetics/Comp-Bio community 👋 Interested in mentoring a comp-bio research student in East Africa over the summer? Do you have any experience in bioinformatics, biostats, genome/RNA-seq analyses, ML, or metagenomics? We'd love to have you as a mentor in our new program! 🧵 (1/n)

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Reposted by Tami Gjorgjieva

Huisheng (Julie) Zhu @huishengzhu.bsky.social · 30/03/2026

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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Tami Gjorgjieva @tamigj.bsky.social · 25/09/2025

What started as a PhD rotation turned into a wonderful collaboration with Noah Rosenberg ✨. (4/4)

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Tami Gjorgjieva @tamigj.bsky.social · 25/09/2025

We use phased SNP-STR reference data from 2504 individuals in the 1000 Genomes Project, with SNPs surrounding the CODIS STRs. When selecting SNPs based on characteristics such as MAF and distance to the STR, we find that ~1000 SNPs suffice for record-matching, a 10-fold reduction. (3/4)

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Tami Gjorgjieva @tamigj.bsky.social · 25/09/2025

Prior work has used around 10,000 SNPs for record-matching. In this project, we asked whether we can further reduce the size of SNP panels required for record-matching with STR profiles? Reducing the number of SNPs has important implications for privacy and cost-effectiveness. (2/4)

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Tami Gjorgjieva @tamigj.bsky.social · 25/09/2025

Existing systems for forensic identification rely on STRs, but future systems may eventually rely on SNP panels. Genetic record-matching could help this transition by enabling the matching of STR and SNP profiles using linkage disequilibrium between SNPs and STRs. (1/4)

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Reposted by Tami Gjorgjieva

Yun S. Song @yun-s-song.bsky.social · 22/09/2025

We are excited to share GPN-Star, a cost-effective, biologically grounded genomic language modeling framework that achieves state-of-the-art performance across a wide range of variant effect prediction tasks relevant to human genetics. www.biorxiv.org/content/10.1... (1/n)

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Tami Gjorgjieva @tamigj.bsky.social · 09/08/2025

Huge congratulations!! So so excited for your lab!

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Reposted by Tami Gjorgjieva

Jonathan Pritchard @jkpritch.bsky.social · 07/07/2025

Staff scientist position (computational): I am looking for a computational scientist to join my genomics lab at Stanford. They should have an outstanding skillset in ML/statistical methods for genomic applications, postdoc experience and a strong publication record. #sciencejobs

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Tami Gjorgjieva @tamigj.bsky.social · 09/06/2025

What a joy to work on exciting science AND do it with a great friend like @itskatelawrence.bsky.social! Check out her 🧵 on our recent preprint with @sbmontgom.bsky.social:

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Reposted by Tami Gjorgjieva

Jonathan Pritchard @jkpritch.bsky.social · 26/01/2025

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 🧵

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Reposted by Tami Gjorgjieva

Alvina Adimoelja @alvinahere.bsky.social · 08/01/2025

Thrilled to share the first paper of my PhD! It was so much fun working on this collaborative project from day one as a rotation student! Huge thanks @khoulahan.bsky.social, @lisemangiante.bsky.social, @crissotomayor.bsky.social, @cncurtis.bsky.social, Jennifer Caswell-Jin & the Curtis lab!

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Reposted by Tami Gjorgjieva

Jeff Spence @jeffspence.github.io · 17/12/2024

What do GWAS and rare variant burden tests discover, and why? Do these studies find the most IMPORTANT genes? If not, how DO they rank genes? Here we present a surprising result: these studies actually test for SPECIFICITY! A 🧵on what this means... (🧪🧬) www.biorxiv.org/content/10.1...

biorxiv.org

Specificity, length, and luck: How genes are prioritized by rare and common variant association studies

Standard genome-wide association studies (GWAS) and rare variant burden tests are essential tools for identifying trait-relevant genes. Although these methods are conceptually similar, we show by anal...

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Reposted by Tami Gjorgjieva

Jonathan Pritchard @jkpritch.bsky.social · 22/11/2024

In a new preprint led by @TheNikhilMilind, we explored a fascinating paradox: For many traits the number of duplications or loss-of-function (LoF) mutations is correlated with phenotype. Curiously, for most traits, the AVERAGE direction of LoFs and Dups is the SAME. Why?

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Reposted by Tami Gjorgjieva

Graham Coop @gcbias.bsky.social · 19/11/2024

Just posting this to #popgen Here's a link to my notes on population & quantitative genetics: github.com/cooplab/popg... Hoping to extend it more after the winter holidays, as I'm just finishing up teaching the undergrad version of class.

github.com

Releases · cooplab/popgen-notes

Population genetics notes. Contribute to cooplab/popgen-notes development by creating an account on GitHub.

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Reposted by Tami Gjorgjieva

Elana Simon @elanasimon.bsky.social · 19/11/2024

🧬 What are protein language models (PLMs) actually learning about biology? Our paper introduces InterPLM - a framework that reveals interpretable features in PLMs using sparse autoencoders, giving us a window into how these models represent protein structure and function. 🧵(1/8)

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Reposted by Tami Gjorgjieva

Laura Helmuth @laurahelmuth.bsky.social · 14/11/2024

I’ve decided to leave Scientific American after an exciting 4.5 years as editor in chief. I’m going to take some time to think about what comes next (and go birdwatching), but for now I’d like to share a very small sample of the work I’ve been so proud to support (thread)

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