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Rachel Ungar

@raungar.bsky.social
253 followers 254 following 45 posts

Postdoc @BroadInstitute Former Postdoc at @StanfordBioethx, Genetics PhD @StanfordMed, BS @UArkansas elsi / rna-seq / rare disease / multi-omics / chronic illness

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Reposted by Rachel Ungar
Jayati Sharma, PhD, ScM @jayatirsharma.bsky.social · 07/07/2026
In what has been a labor of love & joyful collaboration, we are super excited to share our preprint on recommendations towards the ethical and accurate use of population descriptors generated from a survey by trainees, for trainees. www.biorxiv.org/content/10.6...
biorxiv.org
Recommendations for the ethical and accurate use of population descriptors: a trainee-led survey of early-career researchers
Despite the importance of population descriptors in human genomics research, many scientists struggle to translate evolving ethical guidelines into their computational workflows. To characterize this ...
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Reposted by Rachel Ungar
GREGoR Consortium @gregor-research.bsky.social · 12/11/2025
New in @nature.com! “GREGoR: Accelerating Genomics for Rare Diseases” highlights how the GREGoR Consortium is advancing rare disease discovery through data sharing, multi-omics, and next-gen sequencing across 7,500+ individuals in 3,000+ families. 🧬 www.nature.com/articles/s41...
nature.com
GREGoR: accelerating genomics for rare diseases - Nature
The GREGoR consortium provides foundational resources and substrates for the future of rare disease genomics.
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Reposted by Rachel Ungar
Jeff Spence @jeffspence.github.io · 07/11/2025
How do GWAS and rare variant burden tests rank gene signals? In new work @nature.com with @hakha.bsky.social, @jkpritch.bsky.social, and our wonderful coauthors we find that the key factors are what we call Specificity, Length, and Luck! 🧬🧪🧵 www.nature.com/articles/s41...
nature.com
Specificity, length and luck drive gene rankings in association studies - Nature
Genetic association tests prioritize candidate genes based on different criteria.
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Reposted by Rachel Ungar
Alex Geary @alextremophile.bsky.social · 29/08/2025
I am super proud to present our new manuscript “Using SpliceAI to triage splice-altering variants in 7,220 individuals with rare conditions highlights limitations of the precomputed scores” www.medrxiv.org/content/10.1...
medrxiv.org
Using SpliceAI to triage splice-altering variants in 7,220 individuals with rare conditions highlights limitations of the precomputed scores
Background: SpliceAI is a deep learning algorithm that predicts whether genetic variants are likely to affect splicing. Precomputed spliceAI predictions for all theoretical SNVs and small indels were ...
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Reposted by Rachel Ungar
Andrea Ganna @andganna.bsky.social · 22/08/2025
Happy to see this online! Having an extra sex chromosome really challenge the binary definition of sex based on XX and XY. So it is not only a medical, but also an important societal question.
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Reposted by Rachel Ungar
Rachel Ungar @raungar.bsky.social · 26/06/2025
Have you worked with human genetics data? Consider taking this short survey to help us better understand how folks are using population descriptors! 🧬💻🧪
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Rachel Ungar @raungar.bsky.social · 07/08/2025
Roshni is one of the best people to work with, academia is so lucky to have her as a professor!
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Reposted by Rachel Ungar
Michal Caspi Tal, PhD @immunofever.bsky.social · 23/07/2025
You've never seen anything like this before. Come see for yourself! mitnano.mit.edu/events/studi...
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Rachel Ungar @raungar.bsky.social · 26/06/2025
Have you worked with human genetics data? Consider taking this short survey to help us better understand how folks are using population descriptors! 🧬💻🧪
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Rachel Ungar @raungar.bsky.social · 12/06/2025
It's officially online, learn more about the interplay between the X-chromosome, rare variants, sex, and gene expression! 🧬💻🧪
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Reposted by Rachel Ungar
Kate (Kathryn) Lawrence @itskatelawrence.bsky.social · 08/06/2025
Excited to share my first PhD paper in the @sbmontgom.bsky.social lab with @tamigj.bsky.social (www.biorxiv.org/content/10.1...)! Standard QTL methods treat each gene independently. But what if a single variant regulates multiple nearby genes at once - what we call “allelic proxitropy”? 🧵 ⬇️
Standard methods are equivalent to a flashlight, looking at each gene independently. We combine signals from multiple genes, turning a floodlight onto the genome.
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Reposted by Rachel Ungar
Jayati Sharma, PhD, ScM @jayatirsharma.bsky.social · 02/06/2025
This survey was put together by several fellow trainees and friends who are dedicated to the ethical conduct of human genetics research. Tagging some below! @christacaggiano.bsky.social @roshnipatel.bsky.social @raungar.bsky.social @dianexue.bsky.social @jpflores.rbind.io
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Rachel Ungar @raungar.bsky.social · 02/06/2025
Are you an early-career researcher working on the computational analysis of population-level human genetics data? We want to hear from you about if, how, and why you use population descriptors in your research! Fill out our short survey: forms.gle/SCiNUq71wgi5... 🧬💻🧪
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Reposted by Rachel Ungar
Gen Wojcik @genandgenes.bsky.social · 24/04/2025
I wrote a thing. I am eternally grateful for my editor, who took the original draft and helped me narrow down my key points into a more effective piece with a broader reach. Also, thanks to the editorial & legal teams, who maintained the message while protecting us in this fraught moment.
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Reposted by Rachel Ungar
Bohan Ni @bohanni.bsky.social · 26/03/2025
Happy to share our work characterizing functional rare SVs in rare diseases with long-read genome sequencing and transcriptomic outlier data: genome.cshlp.org/content/earl...
genome.cshlp.org
Integration of transcriptomics and long-read genomics prioritizes structural variants in rare disease
An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms
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Andrew Marderstein @amarderstein.bsky.social · 19/02/2025
New preprint w/ @soumyakundu.bsky.social @sbmontgom.bsky.social @anshulkundaje.bsky.social ! Using deep learning & scATAC-seq, we studied context-specific variants in disease & evolution, and introduce FLARE for de novo mutations—w/ application to autism-affected families. doi.org/10.1101/2025...
biorxiv.org
Mapping the regulatory effects of common and rare non-coding variants across cellular and developmental contexts in the brain and heart
Whole genome sequencing has identified over a billion non-coding variants in humans, while GWAS has revealed the non-coding genome as a significant contributor to disease. However, prioritizing causal...
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Rachel Ungar @raungar.bsky.social · 14/02/2025
The Stanford Center for Biomedical Ethics was asked to be the Montgomery Lab's valentine this year via an IRB, and we delightfully approved their request!
are you an irb cuz i want to spend the next 8 months of my life gaining your approval. it then says, will you be our lab valentine? with a fake irb below, and the choice to approve or decline.a fake IRB form with the titel: a proposal for mutual affection and lab valentine's. this describes background and rationale, objectives, study design, potential risks, benefits, confidentiality, and consentexplaining why scbe should be the montgomery's lab valentine through the 4 principles of bioethicsthere's no one elsi like you, i need some guidelines for navigating these feelings, scBE mine
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Reposted by Rachel Ungar
jp flores (he/him) @jpflores.rbind.io · 31/01/2025
Are you a scientist interested in science communication but don’t know where to start? Ever wonder how a graduate student has time for outreach projects? Check out SCOPE! An org @vangeliqueallen.bsky.social and I created! First panel on creating children’s books and podcasts is today at 1pm ET 😊🧪
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Rachel Ungar @raungar.bsky.social · 24/01/2025
Interested in rare variants, the X-chromosome, sex-differences, pharmacogenetics, or transcription factors? You might be interested in our new manuscript where we identified >700 functional rare variants with a difference in effect by sex in GTEx! bit.ly/x_rv_sex #genomics #multiomics 💻🧬
biorxiv.org
Functional impact of rare variants and sex across the X-chromosome and autosomes
The human X-chromosome contains hundreds of genes and has well-established impacts on sex differences and traits. However, the X-chromosome is often excluded from many genetic analyses, limiting broad...
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Reposted by Rachel Ungar
Jonathan LoTempio @realjlo.bsky.social · 22/01/2025
What do you mean when you say that you've #shared your #data broadly? @jonathanmoreno.bsky.social and I published a new data sharing framework in @naturegenet.bsky.social along with #bioethics challenges for #genomics in the #ai era. www.nature.com/articles/s41... @pennmedresearch.bsky.social
nature.com
Overcoming challenges associated with broad sharing of human genomic data - Nature Genetics
This Perspective discusses the definitions of ‘broad’ that have been used in the context of sharing of human genomic data and proposes a clarified and reformed terminology for describing genomic data ...
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Reposted by Rachel Ungar
Annika Barber @annikabarber.bsky.social · 21/01/2025
If anyone happens to need it this week for...reasons...this is the best graphic on the complexity of human sex determination I've ever seen. I use it in an undergrad course on gene regulatory mechanisms. Shoutout to @unamandita.bsky.social! www.scientificamerican.com/article/beyo...
scientificamerican.com
Beyond XX and XY: The Extraordinary Complexity of Sex Determination
A host of factors figure into whether someone is female, male or somewhere in between
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Reposted by Rachel Ungar
Nicky Whiffin @nickywhiffin.bsky.social · 07/01/2025
So excited to read this preprint after Maggie's amazing plenary at ASHG. Congrats @maggie-arriaga.bsky.social and team 🥳 A transcriptome first approach identifies pathogenic variants in RNU4ATAC and highlights the RNU6ATAC as a putative new disease gene 🧬🖥️ A 💪 day for snRNA preprints!!
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Rachel Ungar @raungar.bsky.social · 07/01/2025
Our team identified a new putative disease-gene using a transcriptome-first approach! 💻🧬
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Reposted by Rachel Ungar
Moez Dawood @moezdawood.bsky.social · 20/12/2024
🚨 Excited to announce the Marker paper for the GREGoR Consortium! arxiv.org/abs/2412.14338 Accelerating #RareDisease diagnostics with cutting-edge #Genomics and global data sharing of omics and deep phenotyping from ~7500 individuals on NHGRI AnVIL and much more to come! 🧬
arxiv.org
GREGoR: Accelerating Genomics for Rare Diseases
Rare diseases are collectively common, affecting approximately one in twenty individuals worldwide. In recent years, rapid progress has been made in rare disease diagnostics due to advances in DNA seq...
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Reposted by Rachel Ungar
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 Rachel Ungar
Moez Dawood @moezdawood.bsky.social · 08/12/2024
Paper came out this past week! Using MAVEs to reduce variant classification disparities in underrepresented populations and demonstrating AI bias in computational predictors rdcu.be/d2kCn Previous tweetorial: x.com/MoezDawood/s... Previous post by @ee-reh-neh.bsky.social: bsky.app/profile/ee-r...
rdcu.be
Using multiplexed functional data to reduce variant classification inequities in underrepresented populations
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Rachel Ungar @raungar.bsky.social · 21/11/2024
It was so fun to chat with the amazing @jpflores.bsky.social about our class, incentives in science, and some of our favorite food!
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Rachel Ungar @raungar.bsky.social · 15/11/2024
This is now published! www.cell.com/cell-genomic...
cell.com
Increasing equity in science requires better ethics training: A course by trainees, for trainees
Despite the widespread impacts of human genetics research, few researchers are trained to evaluate how their work impacts and is impacted by society. In response, Patel et al. describe how a group of ...
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Rachel Ungar @raungar.bsky.social · 15/11/2024
It's been a minute since I've been on here, wanted to update that this is now published! www.cell.com/ajhg/fulltex... We saw genome build choice impacting RNA-seq results for ~4% of all genes, and ~39% of all quantified genes from six biospecimen types.
cell.com
Impact of genome build on RNA-seq interpretation and diagnostics
A genome build is the reference sequence to which RNA-sequencing reads are aligned. We found changing the human genome builds (hg19, hg38, and CHM13) impacts interpretation of approximately 39% of gen...
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Rachel Ungar @raungar.bsky.social · 13/11/2024
Congratulations to my mentee Maggie Maurer, an ASHG Trainee Research Excellence Pre-Doctoral Winner. She discovered a new disease gene in her rotation project last year! The critical method for this project was shared with us by collaborator Vijay Ganesh and clinical work was done by Rodrigo Mendez.
two scientists standing in front of ASHG banner smiling
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Michael Love @mikelove.bsky.social · 02/02/2024
Great online course material, Stanford's GENE 220: Introduction to Genetics, Ethics, and Society from @roshnipatel.bsky.social and @raungar.bsky.social h/t @jpflores.bsky.social stanford-genethics.github.io/index.html
Course overview for GENE 220
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Rachel Ungar @raungar.bsky.social · 12/01/2024
Have you ever wondered how genome build is impacting your RNA-seq results? I am excited to share our new paper on medRxiv investigating the impact of hg19, hg38, and chm13 on six routinely-collected biospecimens: www.medrxiv.org/content/10.1... (1/8) 🧬💻👩‍💻🧪
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Kevin Bird @stairwaytokevin.bsky.social · 07/11/2023
Thread of some really great works out this week in the world of countering naive genetic thinking (e.g. hereditarianism, genetic determinism, scientific racism)
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Rachel Ungar @raungar.bsky.social · 06/11/2023
Roshni Patel and I are thrilled to share our paper on the trainee-led course on genetics, ethics, and society that was developed at Stanford: www.biorxiv.org/content/10.1... (1/9) 🧬💻🧪
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