Zixuan (Eleanor) Zhang
@elezzx.bsky.social
300 followers 580 following 38 posts
Postdoc @UPenn working with Drs. Brielin Brown, Bogdan Pasaniuc, and Michael Gandal. Statistical genetics, functional architecture, single cell data. https://zixuanzhang.github.io
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Reposted by Zixuan (Eleanor) Zhang
hakyim.bsky.social
I'm hiring a computational biologist interested in complex trait genetics using deep learning approaches. Reach out to me, if interested.
Reposted by Zixuan (Eleanor) Zhang
yun-s-song.bsky.social
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)
Reposted by Zixuan (Eleanor) Zhang
yun-s-song.bsky.social
SINGER, our ARG inference method, is finally published and freely available online:

doi.org/10.1038/s415...

It was a long journey – 16 months from initial submission to acceptance. Is it just me, or has peer review gotten more arduous lately? 4+ rounds of review isn't so unusual these days...
Robust and accurate Bayesian inference of genome-wide genealogies for hundreds of genomes - Nature Genetics
SINGER is a method for creating ancestral recombination graphs to understand the genealogical history of genomes. The method has increased speed, and thus scalability, without sacrificing accuracy.
doi.org
Reposted by Zixuan (Eleanor) Zhang
Reposted by Zixuan (Eleanor) Zhang
nmancuso.bsky.social
Please consider applying to be HGG new EiC! HGG is a fantastic avenue for publishing work in genetics and genomics, striving for fast turnaround and is committed to open access.
hggadvances.bsky.social
We're seeking our next EiC!
Are you passionate about human genetics & open science?
Apply at apply.ashg.org/a/page/hgga-...
elezzx.bsky.social
Huge congrats Roshni! Couldn’t wait to see what comes next in the new role!!
roshnipatel.bsky.social
Bittersweet to be leaving @docedge.bsky.social after a wonderful postdoc, but excited to share that I'm joining @uoregon.bsky.social next month as an Assistant Professor in the Department of Data Science.
Reposted by Zixuan (Eleanor) Zhang
hakha.bsky.social
I'm thrilled that my lab at NYU is now supported by an NIH MIRA grant! I'm looking to hire 1-2 senior lab members (outstanding postdoc candidates or experienced staff scientists) with expertise in computational or statistical methods in human genetics or genomics. Please share!
Reposted by Zixuan (Eleanor) Zhang
hjp.bsky.social
Super proud of my first student, @jingyour.bsky.social! Well done! Looking forward to the amazing work you will do in the future 🥲 bsky.app/profile/jing...
jingyour.bsky.social
Thrilled to share that I just successfully defended my PhD! Thanks to my committee, collaborators, and everyone who’d supported me throughout my seven years at UCLA. A special thank you to my PI Harold for his incredible mentorship! @hjp.bsky.social
Reposted by Zixuan (Eleanor) Zhang
nmancuso.bsky.social
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!
Reposted by Zixuan (Eleanor) Zhang
epigenci.bsky.social
My talk from this year's probgen is finally out.

Where do linear mixed models and random effects come from?

They emerge from *mutations* on Ancestral Recombination Graphs.
elezzx.bsky.social
Congrats on the first PhD work!! Very nicely done! @alnahid.bsky.social
biorxivpreprint.bsky.social
traceax: a JAX-based framework for stochastic trace estimation https://www.biorxiv.org/content/10.1101/2025.07.14.662216v1
Reposted by Zixuan (Eleanor) Zhang
Reposted by Zixuan (Eleanor) Zhang
ee-reh-neh.bsky.social
🧪🖥️🧬 It's here!! Our second MPRA, which is totally different from the first. For starters, there's no human sequences anywhere!

Instead there's marsupials, wolves, pandas and a lot of hard work from lab members past & present, chief amongst them @navya-shukla.bsky.social (looking for a postdoc btw)
biorxiv-genomic.bsky.social
Dissecting functional regulatory convergence over 160 million years of therian evolution https://www.biorxiv.org/content/10.1101/2025.07.10.662670v1
Reposted by Zixuan (Eleanor) Zhang
jeffspence.github.io
Very excited to see this out and delighted to have played a small part -- @courtsmithrun.bsky.social did a deep dive into the pleiotropy of the HLA locus and found tons of cool stuff, including lots of associations at the SNP, HLA allele, and haplotype levels.
Reposted by Zixuan (Eleanor) Zhang
jkpritch.bsky.social
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
Reposted by Zixuan (Eleanor) Zhang
privefl.bsky.social
I probably won't have time to make a video out of this.

But the materials are available online, and should be pretty self-explanatory.

Hope this is useful to some people.

privefl.github.io/statgen-cour...
Reposted by Zixuan (Eleanor) Zhang
jeromics.bsky.social
Check out our new preprint on Lilace, a statistical tool for scoring FACS-based deep mutational scanning experiments! Lilace directly models the shift between variant fluorescence distributions and provides score uncertainty estimates to better assess reliability and reproducibility. (1/3)
Accurate variant effect estimation in FACS-based deep mutational scanning data with Lilace
Deep mutational scanning (DMS) experiments interrogate the effect of genetic variants on protein function, often using fluorescence-activated cell sorting (FACS) to quantitatively measure molecular ph...
www.biorxiv.org
Reposted by Zixuan (Eleanor) Zhang
axelvisel.bsky.social
Textbooks: “Enhancers are just a bunch of TFBSs”

But how do they REALLY work?

New paper with many contributors here @berkeleylab.lbl.gov, @anshulkundaje.bsky.social, @anusri.bsky.social

A 🧵 (1/n)

Free access link: rdcu.be/erD22
A meme-style comic panel with three parts. Left: A stylized enhancer with a mutation, surrounded by colored blocks representing functional motifs, a neural network diagram, chromatin accessibility signal traces, and a sequence motif. Two cartoon mouse embryos below show different LacZ reporter activity patterns. Top right: A hand hovers anxiously between two red buttons labeled “Experiments” and “AI,” with the caption “HOW DO ENHANCERS REALLY WORK?” Bottom right: A sweating superhero wipes his forehead, looking stressed about the difficult choice.
Reposted by Zixuan (Eleanor) Zhang
mashaals.bsky.social
Our new work is now out in AJHG "Natural selection acting on complex traits hampers the predictive accuracy of polygenic scores in ancient samples." Great collaboration with @delvecchyo.bsky.social and Emilia Huerta-Sanchez, led by Valeria Añorve-Garibay.
Reposted by Zixuan (Eleanor) Zhang
brunildaballiu.bsky.social
🚨 Applications are open for the UCLA Postdoct Training Program in Neurobehavioral Genetics 🧠🧬
Deadline: 6/30
👉 neurogen.semel.ucla.edu/curriculum/
Contact me if you're interested to write a proposal together combining genetics + functional genomics + digital phenotypes from wearables/smartphones!
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neurogen.semel.ucla.edu