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Roshni Patel

@roshnipatel.bsky.social
597 followers 640 following 81 posts

assistant prof at University of Oregon. interested in pop gen, stat gen, human complex traits. also ELSI, metascience, ethics education, etc. she/they. 🌈 roshnipatel.github.io

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Reposted by Roshni Patel
Hanbin Lee @epigenci.bsky.social · 07/10/2026
We then applied the theory to human demography and deduced a provisional estimate of stabilizing selection in humans accounting for LD. The key machinery is Roshni Patel's conditional frequency spectra. With SDEs, this becomes a PDE scheme.
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Hanbin Lee @epigenci.bsky.social · 06/10/2026
Now I turn to an old topic I was ranting in social apps for years. What genomic studies refer to as *narrow-sense* heritability is actually *narrow-narrow-sense* heritability that ignores LD. This is larger than narrow sense h2 under stabilizing selection.
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Hanbin Lee @epigenci.bsky.social · 06/10/2026
We studied the evolution of genome-wide linkage disequilibrium and its influence on genetic architecture with genetic drift. We found that the Bulmer effect is population size and demography dependent. For nerds: genetic architecture follows from solving PDEs.
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Roshni Patel @roshnipatel.bsky.social · 06/10/2026
this is so kind 😭
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Roshni Patel @roshnipatel.bsky.social · 06/10/2026
Would love to hear any feedback, and for more reading on the impact of the 2023 NASEM report, check out our preprint surveying early-career researchers, led by @jayatirsharma.bsky.social and @christacaggiano.bsky.social, from earlier this year: 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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Roshni Patel @roshnipatel.bsky.social · 06/10/2026
But, this also illustrates the importance of bottom-up change: decades of work by individual researchers across the field have systematically improved our use of population descriptors in human genetics and genomics. We need to continue to invest in these efforts -- ethics and rigor are intertwined!
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Roshni Patel @roshnipatel.bsky.social · 06/10/2026
To be clear, this is good news! Over the last 20 years, human genetics GWAS have consistently followed all 2023 NASEM guidelines more thoroughly. (One notable exception is community engagement, which remains poor.)
Nine panel figure depicting linear model fits of ratings for GWAS publications over time, before and after the publication of the NASEM report. The number displayed in each panel is the ratio of the slopes after the NASEM report versus before, and panels correspond to each of the NASEM recommendations (and/or the overall score across recommendations).
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Roshni Patel @roshnipatel.bsky.social · 06/10/2026
Surprisingly, we also find that improvements in the use of population descriptors far predate the publication of the NASEM report -- suggesting these changes are not the result of any single intervention but rather the cumulative effects of tiny shifts in research practices and community norms
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Roshni Patel @roshnipatel.bsky.social · 06/10/2026
Here, we use the recommendations of the NASEM report as a rubric to evaluate the use of pop descriptors. We find that GWAS on datasets from outside the US or UK, or on non-European populations, tend to score better, suggesting these GWAS systematically use pop descriptors more accurately + ethically
Two panel figure depicting ratio of high ratings (4 or 5) for GWAS publications over four time periods. The first panel categorizes publications by "Broad ancestral category" of study participants as entered in the GWAS Catalog, where categories are “European” for studies with only European ancestry participants (n = 2059), and “Other or multiple” for all other studies (n = 1696). The second panel categorizes publications by country of recruitment, where categories are “U.S” where all participants are from the U.S. (n = 468), “U.K.” where all participants are from the U.K. (n = 561), and “Other or multiple” for all other studies (n = 2256).
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Roshni Patel @roshnipatel.bsky.social · 06/10/2026
This work was motivated by a deep appreciation for the 2023 NASEM report on population descriptors, which at the time felt like a groundbreaking feat: geneticists, sociologists, anthropologists, & ethicists speaking with one voice on the use of race, ethnicity, and ancestry in genetic studies
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Roshni Patel @roshnipatel.bsky.social · 06/10/2026
So excited about this work with @nasalab.bsky.social! Led by Stephanie Gogarten & with help from @daphmarts.bsky.social, we use LLMs as judges to evaluate the use of population descriptors in the entirety of the GWAS Catalog (~4,000 papers published 2007-2025) www.biorxiv.org/content/10.6...
biorxiv.org
Large language model-based bibliometric evaluation of population descriptors in human genetics
As the use of population descriptors such as race, ethnicity, and ancestry have become increasingly common in modern genetics research, there have been growing calls to critically examine their use. M...
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Maitreya Dunham @maitreya.bsky.social · 24/09/2026
Exciting news: @uwgenome.bsky.social will be hiring for two tenure-track faculty positions this year, one open rank and one assistant professor. Both are “Genome Sciences” interpreted broadly so we welcome applicants working in a variety of fields and methods. Ad will be out shortly.
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Stand Up for Science! @standupforscience.net · 18/09/2026
We scraped through the data and found that 50% of all clinical trials are at risk of being cancelled. 1,026 cancer trials 273 pediatric trials 115 heart disease trials 184 diabetes trials This is unacceptable and inhumane.
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Dmitri Petrov @petrovadmitri.bsky.social · 17/09/2026
We are searching for an Assistant Professor in Evolutionary Biology! Looking for colleagues asking fundamental questions relating to evolutionary processes and drivers of evolutionary patterns. If you think it is you, please do apply! And please repost. facultypositions.stanford.edu/jobs/assista...
facultypositions.stanford.edu
Assistant Professor in Evolutionary Biology - Stanford University, California, United States
The Department of Biology at Stanford University seeks applicants for a tenure-track Assistant Professor in Evolutionary Biology. A successful candidate will conduct research that asks fundamental que...
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Roshni Patel @roshnipatel.bsky.social · 15/09/2026
...though of course in aggregate the effect on allele frequency change can be substantial. does that answer your question? or perhaps I'm misunderstanding?
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Roshni Patel @roshnipatel.bsky.social · 15/09/2026
thanks Hanbin! hmm, are you referencing "weak LD at unlinked variants" on p. 5? I think we meant weak in a pairwise sense; under a polygenic model the LD between any two unlinked variants should be very weak
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Roshni Patel @roshnipatel.bsky.social · 15/09/2026
huge compliment considering the total absence of plants in here :)
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Kevin Bird @stairwaytokevin.bsky.social · 15/09/2026
Very cool paper and, although still not as cool as plants, a very exciting time to study human genetics and evolution!
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Ana Ignatieva @anaignatieva.bsky.social · 14/09/2026
We are advertising a 3 year postdoc position for a project on ARGs and structural variation! Based at Oxford stats. Closing date noon 12 October, full details here: my.corehr.com/pls/uoxrecru...
my.corehr.com
Job Details
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Yun Deng @yundeng.bsky.social · 14/09/2026
I am excited to share that I will be joining the Baker Institute for Animal Health and College of Veterinary Medicine at Cornell University as an Assistant Professor next spring! I am grateful to my mentors and colleagues who have supported me throughout this journey.
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Roshni Patel @roshnipatel.bsky.social · 14/09/2026
These are of course very old questions with tremendous recent progress; we focus mostly on the recent progress and what it offers for the next era of studying human genetics in biobanks. Excited this preprint is out and we'd of course love to hear any thoughts!
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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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Peter Ellis @pjie2.bsky.social · 12/07/2026
Let biological sex be multifaceted, as all biology is. And when you need to be precise in scientific research, be precise. Say ‘gametic sex’ or ‘chromosomal sex’ or ‘anatomical sex’, or whatever is appropriate to your own work.
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Christa Caggiano @christacaggiano.bsky.social · 09/07/2026
Working on this project was so fun! ❤️ It's really awesome to work with so many passionate scientists who are all committed to improving our field (despite a climate that might not always be so friendly to that) We'd love any feedback, especially from other trainees and early career researchers!
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Roshni Patel @roshnipatel.bsky.social · 07/07/2026
And, of course, we'd love to hear what others think, esp any authors of the NASEM report in question! (3/3)
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Roshni Patel @roshnipatel.bsky.social · 07/07/2026
But this has yet to materialize in systematic changes to the way we approach graduate student education - which is why we conclude this piece by offering recommendations for everyone with a role in mentoring trainees, from PIs to dept heads to scientific societies. As a new PI I recommend! (2/)
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Roshni Patel @roshnipatel.bsky.social · 07/07/2026
I think this work really underscores that we are at a turning point in human genetics. There is a growing consensus that doing good research in human genetics requires an expanded skillset (including, e.g., one that can navigate the relationship between genetics, ancestry, and pop descriptors) (1/)
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Roshni Patel @roshnipatel.bsky.social · 07/07/2026
So excited to see this out! It was an absolute joy and honor to work so closely w @jayatirsharma.bsky.social and @christacaggiano.bsky.social on this - both are terrific examples of the kind of interdisciplinary human genetics researchers that we need more of (and will be on the job market soon 👀)
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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 Roshni Patel
Candy Corn of defiance @drlatigo.bsky.social · 30/06/2026
I commented yesterday, there’s still time
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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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Kevin Bird @stairwaytokevin.bsky.social · 10/05/2026
People have got to wake up to how bad the situation in US science is right now
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Max Kozlov @maxkozlov.bsky.social · 06/05/2026
When the NIH abruptly terminated thousands of research grants last year, the fallout wasn’t distributed equitably. A new analysis suggests the cuts disproportionately hit women, BIPOC, and LGBTQ+ investigators. My latest for @nature.com
nature.com
NIH grant cuts disproportionately hit minority and female scientists
A survey reveals sharp divides in who bore the brunt of last year’s spree of grant cancellations by the Trump administration.
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Krystal Tsosie @kstsosie.bsky.social · 17/04/2026
DNA is not the same as kinship. Our perspective paper argues that treating genetics as the ultimate proof of identity or family can: • erase community-defined relationships • reinforce Western biases • and even cause real harm in policy + research Special Issue: www.cambridge.org/core/journal...
Screenshot of a PDF of the published article. Title: "The tie that binds us? Challenging the primacy of DNA in kinship studies and re-centring community in defining human connections across time"
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Shoumita Dasgupta, PhD @profdasgupta.bsky.social · 18/03/2026
🧪 Pathways for future scientists are becoming scarce, threatening a strong and innovative workforce: “We are not simply shrinking budgets. We are shrinking who gets to imagine themselves in science at all.” @jpflores.rbind.io hechingerreport.org/opinion-path...
hechingerreport.org
OPINION: We need to expand research experience for college students to HBCUs, regional public universities and community colleges
If we want a scientific workforce capable of addressing the challenges we face, we must invest in scientists long before they become scientists. That means expanding research opportunities, supporting...
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Jenna Norton @jenna-m-norton.bsky.social · 06/03/2026
Current NIH leadership want you to think they are using rigorous, consistent & scientific processes to screen studies to align them with agency priorities. But the process that they have put down on paper is a sham. It’s important to know NIH is not following its own guidance. Here’s why: 🧵1/
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Jenna Norton @jenna-m-norton.bsky.social · 06/03/2026
7/ In reality, my colleagues still inside NIH tell me that their assessments are largely ignored. Once a grant or application is picked up by the tool, they are almost never able to move the grant forward as is - regardless of the scientific justification.
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Shai Carmi @shaicarmi.bsky.social · 01/03/2026
Great perspective by @philipcball.bsky.social. Elementary genetics teaching (HS/college) focuses on Mendelian traits (single gene => single trait). However, it is now clear that polygenicity and pleiotropy are the norm. Curriculum must change accordingly. www.sciencedirect.com/science/arti...
sciencedirect.com
Should biology put complexity first?
The dictum “Everything should be made as simple as possible, but no simpler” poses a problem for biology. How simply can it be told without doing dama…
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Jazlyn Mooney @jazlynmooney.bsky.social · 26/02/2026
Excited that our work was featured on the local (Bay Area) news for their Black History month series. Interview with Noah and clips from my interview with @dornsife.usc.edu and CGSI talk in the article below www.nbcbayarea.com/discover-bla...
nbcbayarea.com
Stanford researchers help trace ancestry for African Americans
A group of Stanford researchers is offering a mathematical model to help link family connections up to 410 years ago.
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Princeton University Press @princetonupress.bsky.social · 26/02/2026
Sam Trejo and @daphmarts.bsky.social, authors of What We Inherit: How New Technologies and Old Myths Are Shaping Our Genomic Future, write for @livescience.com about new reproductive technologies and the importance of regulation:
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Rebecca Sear @rebeccasear.bsky.social · 17/02/2026
Publications which use "national IQ" data still appearing in Springer Nature journals in 2026. Cool cool doi.org/10.1057/s415...
doi.org
Beyond GDP: national intelligence quotient as a catalyst for sustainable socioeconomic welfare - Humanities and Social Sciences Communications
Humanities and Social Sciences Communications - Beyond GDP: national intelligence quotient as a catalyst for sustainable socioeconomic welfare
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Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 09/02/2026
Fun news! @gcbias.bsky.social and I are teaching a 2-week online population genetics workshop this summer to raise money for the Center for Population Biology at UC Davis. We're trying to gauge interest -- please fill this out if you might be interested! And please share broadly!
docs.google.com
Davis Summer Population Genomics Program
Want to learn population genetics? Please fill out this form to indicate your potential interest in a 2-week intensive online summer population genetics course taught by Jeffrey Ross-Ibarra and Graham...
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Roshni Patel @roshnipatel.bsky.social · 30/01/2026
I hear you, and: hope, change, etc is non-linear and multi-faceted. I guarantee that the world looks a little bit different to a whole bunch of first year grad students taking notes on scientific activism (it looks different to me, too).
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Colette Delawalla, PhD @cdelawalla.bsky.social · 30/01/2026
Someone on LinkedIn just asked me "why scientists should care and mobilize" right now. But the answer is simple: BECAUSE IT IS THE MORALLY RIGHT THING TO DO. People are being killed in the street, our democracy is being eroded, & we are watching the onset of authoritarianism before our eyes. 1/
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Jenna Norton @jenna-m-norton.bsky.social · 29/01/2026
To the extent that the fate of NIH and ICE funding may continue to be linked, we as scientists may feel forced to choose between protecting our own funding and the safety and wellbeing of our neighbors. This is a false choice. open.substack.com/pub/sciencea...
open.substack.com
Demanding a Homeland Security bill that reins in lawlessness is the best path for science–even if it stalls NIH funding
The Senate voted today on a final funding package that included both the National Institutes of Health (NIH) and Immigration and Customs Enforcement (ICE), among many other agencies and institutions.
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Joyce Wang @joyce-yiyi-wang.bsky.social · 26/01/2026
Relatedly, some cool recent work from @roshnipatel.bsky.social, Jeffrey Spence, @jkpritch.bsky.social et al. dives deep into expectations, based on models of natural selection, for allele frequency in a group B conditional on allele frequency in group A. academic.oup.com/genetics/art... (16/27)
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Joyce Wang @joyce-yiyi-wang.bsky.social · 26/01/2026
Our work on the generalizability of polygenic scores (PGS) from the @arbelharpak.bsky.social Lab is now officially out! We examine the accuracy of PGS predictions at the individual level. We make 3 observations that expose gaps in our understanding of PGS “portability.” rdcu.be/e0LAr (1/27)
rdcu.be
Three open questions in polygenic score portability
Nature Communications - Genetic predictors of health outcomes often drop in accuracy when applied to people dissimilar to participants of large genetic studies. Here, the authors investigate the...
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Max Kozlov @maxkozlov.bsky.social · 22/01/2026
🚨 New from me: Grant review at more than half of NIH's institutes could be frozen by the end of the year. That's because crucial NIH grant-review panels are slated to be empty at those institutes by Jan 2027. A wonky bureaucratic problem with big implications. A short 🧵
nature.com
Exclusive: key NIH review panels due to lose all members by the end of 2026
Thirteen of the agency’s advisory councils, which must review grant applications before funding is awarded, are on track to have no voting members.
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Nikhil Milind @nikhilmilind.dev · 06/01/2026
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
doi.org
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...
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Sasha Gusev @sashagusevposts.bsky.social · 13/12/2025
I wrote about the bizarre case of Herasight, the embryo selection company going all in on eugenics.
open.substack.com
Embryo selection company Herasight goes all in on eugenics
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