Abdullah Al Nahid

Congratulations to everyone involved!!

Super excited to see this out. What started as some math in a grant in 2020, to a student deciding to take this on in 2022, to published in 2025.

These things can take time and patience is key!

People often intuitively interpret genetic ancestry PCA plots as simple genetic distances, but this is not always the case. Below are random pairs of individuals that are far apart in PCA space (lines) but actually have fewer total variant differences (numbers).

Congratulations Professor!

I'm become quite partial to cell-type-biased (population-biased) terminology rather than cell-type-specific (population-specific) when it comes to QTLs, because it reflects better that these are a result of power, rather than biological differences.

Thank you Dr. Eleanor!! All thanks to @nmancuso.bsky.social and Linda!

Congrats on the first PhD work!! Very nicely done! @alnahid.bsky.social

traceax: a JAX-based framework for stochastic trace estimation https://www.biorxiv.org/content/10.1101/2025.07.14.662216v1

Excited to announce our first interactive article on sandbox.bio, about genomic ranges: sandbox.bio/concepts/gen...

Move & resize the ranges to see how that affects bedtools operations like merge and intersect in real time!

5 papers all computational biologists should read 🧵

1. A Quick Guide to Organizing Computational Biology Projects
journals.plos.org/ploscompbio...

those are some delicious looking wings

Weekly Recap (June 2025, part 2): Interactive visualization of tabular data, shared foundations of gene expression and chromatin structure, fast protein structure searching with graph embeddings, visualizing cis-regulatory rules 🧬🖥️🧪 doi.org/10.59350/wrg...

This a really exciting leap forward for genomic sequence to activity gene regulation models. It is a genuine improvement over pretty much all SOTA models spanning a wide range of regulatory, transcriptional and post-transcriptional processes. 1/

Awesome first night of the Galaxy and Bioconductor community conference at CSHL. The GBCC Live demo was the star showing off how to connect the communities through a detailed spatial omics tumor analysis. #GBCC2025 @galaxyproject.bsky.social @bioconductor.bsky.social @cshlmeetings.bsky.social

The first Galaxy / Bioconductor joint conference #GBCC2025 starts next week at CSHL! If anyone wants to connect feel free to reach out here.

Lightning talks signup form coming soon...

Excited to share that my PhD defense is coming up! I’ll be presenting on "statistical and computational approaches to characterize functional architectures for human diseases and complex traits".
📅 June 9 (Monday) at 2-4pm PST
zoom link: usc.zoom.us/j/93369681715

i agree

The work people wind up building on is the one with easy-to-use code and fast run-time. If you have a cool method but people aren't using it, try making it faster or more accessible! Sometimes that's all it is

All NIH and NSF grants for my entire team--and for all of Harvard, I guess?--have been terminated.

As provocative as that sounds, the practical effect is probably not much. Everything was already frozen. 🤷‍♂️

On the upside, it makes tracking terminated grants easier. No more guesswork at Harvard!

Hi trainees! I'm at Biology of Genomes and would be thrilled to chat about your work, any questions about academia/science, and Andor. Please don't hesitate to reach out here, by email, or by shouting at me!

#bog25 #bog2025

Efficient count-based models improve power and robustness for large-scale single-cell eQTL mapping Population-scale single-cell transcriptomic technologies (scRNA-seq) enable characterizing variant effects on gene regulation at the cellular level (e.g., single-cell eQTLs; sc-eQTLs). However, existi...

Excited to present our work on developing jaxQTL, a fast single-cell eQTL mapping tool that improves power and robustness in identifying sc-eQTLs using count-based models. See details in threads 🧵
www.medrxiv.org/content/10.1...

Academia friends, this week I’m discussing scientific conference talks and posters with my graduate student course.

What are your top tips for how to give a good conference talk or a good poster presentation, how to design your slides or poster, or what not to do? 🧪

Thank you so much Professor! 😇

In my pursuit of learning R, contributing to tidyomics ecosystem, and advancing my education, Professor @mikelove.bsky.social has consistently guided me and shown kindness, support, and guidance.

Thank you so much Professor.
It is an incredible honor for me.

Recently co-authored the preprint on the #tidyomics ecosystem.

Give it a read, check out the R packages, and explore omic data with tidyverse!

doi.org/10.1101/2023...

I developed an open-source app + REST API that lets you follow multiple handles at once in bsky.

app: bsky-app.vercel.app
api: github.com/nahid18/bsky...

I have deployed my personal website:
abdnahid.vercel.app