⬇️ Priors matter for weak genetic links:

'a large fraction of distant relationship estimates reported by direct-to-consumer genetic testing companies are simply incorrect [...] a large proportion of relatives that are reported as fifth cousins are in fact much more distant.'

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In a collaboration between ManjushaChintalapati ,Laurits Skov , Alba Bosoms Mesa, Mateja Hajdinjak , Benjamin Peter and Priya Moorjani , we've journeyed into our shared history with Neandertals by analyzing over 300 genomes spanning 50,000 years. A thread 🧵🧬
biorxiv.org/content/10.110…

New preprint by Adam and me on our EM method to infer general diploid selection from time-series genetic data: biorxiv.org/content/10.110…

Clever idea of recombining genomes in silico - safeguarding against data privacy issues while preserving valuable haplotype reference panels (e.g., for imputation)

23andMe Research & Therapeutics Amy Williams And our preprint is live! A great collab w Amy Williams and 23andMe Research & Therapeutics, led by my amazing grad student Cole Williams ! “Phasing millions of samples achieves near perfect accuracy, enabling parent-of-origin classification of variants.” bioRxiv doi: biorxiv.org/content/10.110…

New Preprint by Yilei Huang and with Shai Carmi:

Using IBD tracts in time transects boosts inferring effective population size trajectories. 📈🧬
We released this as a tool called TTNE, well-suited for the increasingly large aDNA time series.

doi.org/10.1101/2024.0…

The floods in Brazil persist, revealing critical shortcomings in disaster management. Here is my take:

📣Communication failures exacerbated the crisis. While Metsul and CEMADEN issued alerts, many districts did not react. They lack Civil Defense coordination & contingency plans

⬇ Giant pedigrees connect 100s of ancient genomes from the early Medieval Awars of the Carpathian basin. Strictly patrilineal and avoiding any consanguinity whatsoever! It's mind-boggling what new insights into past social organization aDNA can create 🤯💀🧬

Last week, we released our preprint on Poseidon, which seeks to make archaeogenetic data more Findable, Accessible, Interoperable and Reproducible, by defining a data package standard, software tools and public repositories and cloud infrastructure 1/12

ancIBD update available! ⬇️ Yilei Huang implemented two new modes:
1) Calling IBD on the X
2) Calling double IBD (e.g. in full siblings)
We hope that helps to resolves some aDNA pedigree riddles 🦴🧬🕵‍♀️

Sessions will be led by James Fellows Yates | @[email protected] Selina Carlhoff Krystal Tsosie Şevval Aktürk Harald Ringbauer @[email protected] Ayshin Ghalichi Bárbara Sousa da Mota Université de Lausanne Stephan Schiffels Jazmín Ramos Madrigal Rpbert Maier Massachusetts Institute of Technology (MIT)
🧵2/2

🧬HAAM Summer School🧬 17-19 June 2024, online and *free*
💻 3 days with all things aDNA, with theoretical + practical sessions & round tables:
1⃣ NGS data processing & Ethics
2⃣Genetic relatedness
3⃣Pop gen analyses
Applications will open soon!
haam-community.github.io/projects/haam_…

Summer School 'Bridging #Archaeogenetics & Medieval Studies: Using #aDNA as a source for migration, demographics, kinship & pathology' from 23-27 September BBAW in Berlin & MPI-EVA Leipzig (on 25 September). 🥼🧪🧬 Register by 30 April! More: tinyurl.com/mvu5dkfw

DNA says you’re related to a Viking, a medieval German Jew or a 1700s enslaved African? What a genetic match really means. The short answer: Usually not as much as you might think. Read more in this The Conversation piece by Shai Carmi & Harald Ringbauer. theconversation.com/dna-says-youre…

I was hoping this would come out soon. Great work!

'We assembled 137 ancient genomes from the Neolithic to the Iron Age with an emphasis on the Bronze Age period'.

Ancient DNA from Belarus shows first contact between Yamnaya and Corded Ware ca. 5075 BCE

biorxiv.org/content/10.110…

Found a shared genomic segment (IBD) of a modern genome with a Medieval individual? It does not imply an exceptional genealogical connection, really!
Read more in our short The Conversation piece (inspired and led by Shai Carmi) ⬇️
theconversation.com/dna-says-youre…

In this preprint, Aylwyn Scally, Richard Durbin and I present evidence for deep population structure shared by all modern humans biorxiv.org/content/10.110… Aylwyn Scally Richard Durbin

It seems like it's the time of the year for coalescent hidden Markov model preprints:
biorxiv.org/content/10.110…
biorxiv.org/content/10.110…

(ProbGen?)

Only a few days left to apply for 2.5 year postdoc position in plant Ecological Genomics in Australia. Previous link has expired, but you can also apply here: mq.wd3.myworkdayjobs.com/CareersatMQ/jo…