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Elise Kerdoncuff

@ekerdoncuff.bsky.social
164 followers 159 following 17 posts

Postdoc in population genetics at Institut Pasteur, Paris, France. ekerdoncuff.github.io

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Reposted by Elise Kerdoncuff
Stephan Schiffels @stschiff.bsky.social · 12/08/2026
If you are interested in learning computational population genetics and ancient genomics, I have curated my list of workshops and online tutorials (and will continue to do so) indicating suitability for self-learners and status. You find the list [here](www.stephanschiffels.de/resources.html).
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Reposted by Elise Kerdoncuff
Yulin Zhang @yulinzhang.bsky.social · 30/07/2026
Good news! Our paper (with @aabiddanda.github.io @sarahaj34.bsky.social @codushlaine.bsky.social and Priya Moorjani) is now officially online! www.science.org/doi/10.1126/...
science.org
Recovering signatures of archaic hominin introgression using ancestral recombination graphs
Admixture between modern humans and extinct hominins has shaped the genomes of present-day individuals, but reconstructing this history has been constrained by the scarcity of archaic samples and unad...
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Jonathan Pritchard @jkpritch.bsky.social · 23/09/2024
Two new chapters from my free online book in human genetics out this weekend! These complete Part 3 of the book, on human population structure and history: 3.3: Human prehistory [separate thread] 3.4: Ancient DNA: a genetic time capsule [this thread] web.stanford.edu/group/pritch...
web.stanford.edu
An Owner's Guide to the Human Genome
An Owner's Guide to the Human Genome
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 01/01/2026
Thanks for the highlight of our study! Roots of milk drinking revealed by South Asian genomes | Science | AAAS www.science.org/content/arti...
science.org
Roots of milk drinking revealed by South Asian genomes
Natural selection was at work—but only in populations with no alternative to dairy
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Reposted by Elise Kerdoncuff
Alan Rogers @alanrogers.bsky.social · 27/11/2025
I taught (and co-taught) a course on human population genetics from 2000-2024. Having retired, I'm now making all the course materials public: github.com/alanrogers/p... #popgen #evbio
github.com
GitHub - alanrogers/popgen: A course on population genetics
A course on population genetics. Contribute to alanrogers/popgen development by creating an account on GitHub.
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Reposted by Elise Kerdoncuff
Sarah Nelson @blueyedgenes.bsky.social · 25/11/2025
Out now in @natgenet.nature.com, our Comment analyzing uses of the Human Genome Diversity Project (HGDP), a controversial dataset in human genomics research. A 🧵 rdcu.be/eRu65 1/
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Reposted by Elise Kerdoncuff
Yun Deng @yundeng.bsky.social · 26/11/2025
Work from my amazing undergrad @leyan-wang.bsky.social is just preprinted! TL;DR: If you worry that ARG methods might fail on unphased data due to phasing errors, you may not need to. Check it out & consider reposting to support a great young scientist!
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Reposted by Elise Kerdoncuff
Mathilde André @mathilde-andre.bsky.social · 23/11/2025
The preprint from my first postdoc is finally out! I had a blast working on this project with such an amazing team!
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Reposted by Elise Kerdoncuff
Meaghan Marohn @meaghanmarohn.bsky.social · 07/11/2025
My first preprint of my PhD! Thanks to @ekerdoncuff.bsky.social and @moorjanipriya.bsky.social for their guidance and mentorship in this project!
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Reposted by Elise Kerdoncuff
John Hawks @johnhawks.net · 02/10/2025
The genetics of South Asia are coming into focus, helping reveal how fast the avalanche of modern humans got going. This region has more Neanderthal genetic variation than any other, and a unique component of Denisovan ancestry never seen before. www.johnhawks.net/p/deep-histo...
johnhawks.net
Deep history from the genomes of India
People carrying Neanderthal mixture entered the subcontinent after 50,000 years ago, meeting Denisovans
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Reposted by Elise Kerdoncuff
POPGROUP59 @popgroup2026.bsky.social · 29/09/2025
Exciting news! The next #PopGroup meeting will take place in Lille 🍟, France, 7–9 January 2026 – just 1 hour by train from London, Brussels, and Paris. This year, PopGroup will also host ALPHY, the annual meeting of Evolutionary Genomics. More info: populationgeneticsgroup.org.uk See you there !
populationgeneticsgroup.org.uk
Population Genetics group 59
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Reposted by Elise Kerdoncuff
Yun S. Song @yun-s-song.bsky.social · 11/09/2025
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...
doi.org
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.
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Molly Schumer @mollyschumer.bsky.social · 10/08/2025
Our review on the last decade+ of hybrid incompatibility research is now out! www.sciencedirect.com/science/arti... Original thread here: bsky.app/profile/moll...
sciencedirect.com
The molecular evolutionary basis of species formation revisited
How do new species arise? This is among the most fundamental questions in evolutionary biology. The first genetic model for how reproductive barriers …
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Reposted by Elise Kerdoncuff
QB3-Berkeley @qb3-berkeley.bsky.social · 24/07/2025
New research from Priya Moorjani's lab offers insights into India’s genomic legacy. Postdocs @lauritsskov.bsky.social and @ekerdoncuff.bsky.social traced Indian's ancestry to three main sources. Read the findings in this story by grad student Jules Perez: bit.ly/3IK46vh
An illustration of a DNA strand surrounded by faces. Artist: Saurabh Singh.
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Reposted by Elise Kerdoncuff
Nature Portfolio @natureportfolio.nature.com · 09/07/2025
It’s been 25 years since the UCSC Genome Browser launched. Nature profiles how the website remains an essential tool for navigating the genome and understanding its structure, function, and clinical impact. #Academicsky 🧬 🧪
go.nature.com
’We couldn’t live without it’: the UCSC Genome Browser turns 25
After a quarter of a century, the website remains an essential tool for navigating the genome and understanding its structure, function and clinical impact.
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Reposted by Elise Kerdoncuff
Cell Press @cellpress.bsky.social · 27/06/2025
Genomes from people across modern-day India shed light on 50,000 years of evolutionary history. dlvr.it/TLbY4F @ekerdoncuff.bsky.social & colleagues @cp-cell@bsky.social
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Reposted by Elise Kerdoncuff
UC Berkeley @ucberkeleyofficial.bsky.social · 26/06/2025
A new analysis of Indian genomes helps untangle these groups’ complex evolutionary history, uncovering a 50,000-year history of genetic mixing and population bottlenecks that shaped genetic variation, health and disease in South Asia. news.berkeley.edu/2025/06/26/s...
news.berkeley.edu
Scientists complete the most thorough analysis yet of India's genetic diversity - Berkeley News
A comparison of more than 2,700 complete genomes from South Asians uncovers a wealth of ancient and recent diversity and genetic links to disease.
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 26/06/2025
Our paper out today: 50,000 years of evolutionary history of India: Impact on health and disease variation: Cell www.cell.com/cell/fulltex...
cell.com
50,000 years of evolutionary history of India: Impact on health and disease variation
A genomic study of 2,762 individuals from India offers important insights into the genomic diversity and evolutionary history of the subcontinent and highlights the extensive genetic variation, gene f...
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 26/06/2025
Check out our dive into 50,000 years of Indian genetic history!🇮🇳 🧬~2,700 genomes 🦴Neanderthal/Denisovan DNA 🌾Hunter-gatherer, Iranian farmer & Steppe ancestry 🩺Health-linked, population-specific variants @lauritsskov.bsky.social & Priya Moorjani #Genomics #India #HumanEvolution #PopulationGenetics
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Ryan Gutenkunst @ryangutenkunst.bsky.social · 24/06/2025
Packed house at today’s GHIST kickoff meeting. Pop gen folks, join the competition to learn, have fun, and help our community. ghi.st (Thanks to @drk-lo.bsky.social for the pic.) #Evol2025
Attendees of GHIST kick off workshop.
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Graham Coop @gcbias.bsky.social · 07/06/2025
The university of California is a powerhouse of innovation, healthcare, and social mobility for California and the US.
Federal investment in UC research Federal funds are the university’s single most important source of support for research, accounting for more than half of UC’s total research awards.

Many of California’s leading industries grew from UC research, including biotechnology, computing, semiconductors, telecommunications and
agriculture.

Providing health care at UC University of California Health (UC Health) is one of the nation’s largest public academic health systems, serving
as a critical part of the California safety net.

UC trains approximately 36% of the medical residents in California
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Laurits Skov @lauritsskov.bsky.social · 05/05/2025
We ( @zeniabaek.bsky.social @moicoll.bsky.social and @asgerhobolth.bsky.social ) present a new cool way to visualize the optimal trade off for hmm decoding called Artemis plots! arxiv.org/pdf/2504.15156 www.biorxiv.org/content/10.1...
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Marta Mirazon Lahr @martamlahr.bsky.social · 30/04/2025
Why do Polynesians gave high risk of metabolic disease? Dang Liu tests the thrifty genotype vs population adaprive patterns (considering % Austronesian & Papuan ancestries), demographics (strong bottleneck in Eastern Polynesians!). Results: both!! BMI thrifty, HDL & others under drift & more!! 🤩
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Stand Up for Science! @standupforscience.net · 07/03/2025
TODAY IS THE DAY! 🧪☀️⬇️ Join us at the Lincoln Memorial or your local site to Stand Up for Science!
Flyer for stand up for science--more information available at www.standupforscience2025.org
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 07/03/2025
Had the opportunity to present my work on Lactase Persistence in South Asia, in collaboration with Meaghan Maroon, at #probgen25! Excited to share our findings with this amazing community!
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Reposted by Elise Kerdoncuff
Maud Tenaillon @maudtenaillon.bsky.social · 26/02/2025
🚨 Applications Open! 🎓 The Master 2 EvoGEM offers training in computational & mathematical modelling to interpret evolutionary mechanisms from genomic data. 📍Taught in English in Paris (MNHN, PSL, Sorbonne Univ., Univ. Paris-Cité & Paris-Saclay) 🔹 Research in leading labs 🔗 Apply now: evogem.fr
evogem.fr
Inter-institutional Master in evolutionary genetics
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Shahan Ali Memon @shahanmemon.bsky.social · 21/01/2025
How important are your #postdoc years in the likelihood of you staying & succeeding in #academia? In our newly published paper in @pnas.org, "Postdoc Publications and Citations Link to Academic Retention and Faculty Success," we study the journey of #CareerSuccess of ~45,000 #postdocs. 🧵1/7
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 13/01/2025
Proud to see our work cited as part of these big discoveries ! 🧬🌏
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Morgan Kelly @invertevoeco.bsky.social · 09/01/2025
Evolution instructors! I'm adding 'Make an evolution meme' to the extra credit opportunities in my class this semester. I know I've seen some great examples of student-generated memes on here - can you share some of your favorites so I can give them examples of what I'm looking for?
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Reposted by Elise Kerdoncuff
Harald Ringbauer @hringbauer.bsky.social · 03/12/2024
PhD opportunity in computational population genetics at @MPI_EVA_Leipzig: Join our fully funded project to develop IBD-segment tools, connecting high-quality genomes from 500 Black Death victims to modern Europeans. 🌍💻🧬 Please spread the word! 📢🙌 #aDNA #PopGen www.eva.mpg.de/de/karriere/...
Sketch of IBD segments linking Medieval genomes from the Black Death (1350 CE) to modern Europeans. Logo of ERC-funded research.
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Laurits Skov @lauritsskov.bsky.social · 02/12/2024
Very excited (and a bit nervous) to announce that I will be hiring two Postdocs for my new group(!) in Copenhagen to study the Neanderthal and Denisovan DNA which survives in present-day humans. Retweet will be much appreciated :) Link for application: candidate.hr-manager.net/ApplicationI...
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 27/02/2024
Join Harald Ringbauer and I to learn about "Haplotype-based methods and frameworks for inference of evolutionary history" at #SMBE2024 in Puerto Vallarta, Mexico, July 7-11! 🧬🌐💻 Invited Speakers: @amygoldberg.bsky.social and Pier Palamara Submit your abstracts by March 15th at smbe2024.org #SMBE24
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
👏👏👏 This work was a collaborative effort and would not be possible without all the help from everyone involved:  Nick Patterson, Wei Zhao, Yuk Yee Lueng, Gerard D. Schellenberg Jennifer A. Smith, Sharmistha Dey, Andrea Ganna, AB Dey, Sharon L.R. Kardia, Jinkook Lee. [11/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
We also found that a majority of ancestry in present-day Indians trace back to an out-of-Africa migration around 50,000 years ago. [10/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
We find many instances of both Neanderthal and Denisovan segments which have reached high frequency in India – many envolved in the immune response. One such segment is a Neanderthal haplotype which is a major genetic risk factor for severe COVID. [9/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
The amount of both Neanderthal and Denisovan sequence correlates with Andamanese hunter gatherer related ancestry (AHG). This suggests that the ancestors of this population may have unique encounters with both Neanderthals and Denisovans (perhaps in South East Asia). [8/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
We find around 200 Mb of Neanderthal sequence and 300 Mb of Denisovan sequence which is unique to India! We also find the while most Neanderthal sequence worldwide is shared most Denisovan sequence is unique to different regions. [7/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
We find a highly diverse set of archaic segments in India. We are able to reconstruct more of the introgressing Denisovan and Neanderthal genome from just 2700 individuals from India compared to 27,566 individuals from Iceland. [6/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
In LASI-DAD individuals, the majority (>90%) of the homozygosity stems from small HBD segments (rather than long HBD segments, >8cM), suggesting a primary role of historical founder events as the source of homozygosity. [5/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
We show common source of Iran farmer-related ancestry related to Neolithic samples from Sarazm in different genetic clusters in India. Archaeological evidence supports direct connections between Sarazm and South Asia, with sites of Mehrgarh and Indus Valley Civilization. [4/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
Using Andamanese hunter gatherers (AHG)-related, Iran farmer-related and Steppe pastoralist-related populations we inferred the genetic composition of the Indian cline individuals. AHG-related ancestry proportion is associated with geography, language and caste affiliation [3/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
We generated 2,762 high coverage genomes from India––including individuals from most geographic regions, speakers of all major languages, and tribal and caste groups––providing a comprehensive survey of genetic variation in India. [2/11]
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Elise Kerdoncuff @ekerdoncuff.bsky.social · 21/02/2024
We (Laurits Skov, Priya Moorjani and I) are very happy to share this preprint on the genetic history of India: 50,000 years of Evolutionary History of India: Insights from ~2,700 Whole Genome Sequences 🇮🇳🧬 doi.org/10.1101/2024... [1/11]
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bioRxiv Evolutionary Biology @biorxiv-evobio.bsky.social · 17/02/2024
50,000 years of Evolutionary History of India: Insights from ~2,700 Whole Genome Sequences www.biorxiv.org/content/10.1101/202…
biorxiv.org
50,000 years of Evolutionary History of India: Insights from ~2,700 Whole Genome Sequences https://www.biorxiv.org/content/10.1101/2024.02.15.580575v1
India has been underrepresented in whole genome sequencing studies. We generated 2,762 high coverage
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bioRxiv Evolutionary Biology @biorxiv-evobio.bsky.social · 17/12/2023
Fast and accurate estimation of selection coefficients and allele histories from ancient and modern DNA www.biorxiv.org/content/10.1101/202…
biorxiv.org
Fast and accurate estimation of selection coefficients and allele histories from ancient and modern DNA https://www.biorxiv.org/content/10.1101/2023.12.16.572012v1
We here present CLUES2, a full-likelihood method to infer natural selection from sequence data that
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