Jorge García

Latest in #GENETICS: @petrelharp.bsky.social and the team show how non-coalescing haplotypes can be inserted into ancestral recombination graphs (ARGs), resulting in ARGs that are smaller, faster to compute with, and have additional ancestral information. buff.ly/X801LTO

SAI: A Python Package for Statistics for Adaptive Introgression Abstract. Adaptive introgression is an important evolutionary process, which can be identified with widely used summary statistics, such as the number of u

And another paper from the admixlab: SAI - statistics for adaptive introgression!
doi.org/10.1093/molb...

A curated dataset of great ape genome diversity Scientific Data - A curated dataset of great ape genome diversity

Paper out now: A curated dataset of the great ape genome diversity!
rdcu.be/eQLCi

We detail how multiple modes of confounding are incompletely understood and underappreciated in many contemporary papers. We illustrate these issues through reanalysis of data from case studies and discussion of the literature. We focus on…

Reformation of science publishing: the Stockholm Declaration | Royal Society Open Science Science relies on integrity and trustworthiness. But scientists under career pressure are lured to purchase fake publications from ‘paper mills’ that use AI-generated data, text and image fabrication....

Newly released Stockholm Declaration recommends the following reforms to publishing:

1. Academia resumes control of publishing

2. Incentive systems to merit quality, not quantity

3. Independent fraud detection and prevention

4. Legislation and policies to protect science quality and integrity

eLife Assessment This important study reports the results of efforts to replicate two phenomena of significant interest to early-career scientists and scientific policymakers: the Matthew effect and the early-career setback effect. Several previous studies of these effects have focused on early-career researchers with grant proposals that fell just below or just above a funding threshold. Those just above the threshold were more likely to be successful when they applied for funding later in the career (an example of the well-known Matthew effect), while those just below were more likely to go on to have stronger publication records (the early-career setback effect). In this study the Matthew effect was found to be robust across funders, and to generalize from those close to the funding threshold to the whole population. The early-career setback effect was not robust across funders and did not generalize to the whole population. The evidence reported is convincing.

Evidence from 14 research funding programmes confirms that early winners tend to keep winning (Matthew effect). But the idea that an early setback makes you stronger later doesn’t replicate widely.
buff.ly/UEtcRd4

The Johri Lab has an open postdoc position. Please send me an email, if interested. Start date is flexible. Please do share! Thank you in advance.

New paper on a late Neanderthal, with contribution from the lab:
dx.doi.org/10.1073/pnas...

We left the US and moved to France Hello readers, I got big updates! Some of you already know this, but it’s getting more real and more official every month: my family and I have left the US and moved to France! A few months ago I q…

I started a new job in Montpellier, France!
Happy about new opportunities, sad about the state of things in the US.

abetterscientist.wordpress.com/2025/10/26/w...

Para dejar mal a Mozart verdad?

I'm hiring!⭐ As part of the DFF Sapere Aude-funded project MiddleEarth, I am looking for 1 postdoctoral researcher and 1 research assistant.

Proud of the latest edition of my free intro biostats book.

gitrepo: github.com/ybrandvain/b...
book: ybrandvain.github.io/biostats/

Not complete but at a good point to take a break, and I think its quite usable

dm me with comments , ideas etc

An early East Asian lineage with unexpectedly low Denisovan ancestry Yang et al. study Denisovan ancestry in ancient and present-day humans. In contrast to other East Asians, genomic comparisons suggest that the Jomon derived most of their ancestry from a deep lineage ...

In a new paper led by Jiaqi Yang we trace the distribution of Denisovan introgressed DNA in ancient modern human genomes over time.

www.cell.com/current-biol...

A high-coverage genome from a 200,000-year-old Denisovan Denisovans, an extinct sister group of Neandertals who lived in Eastern Eurasia during the Middle and Late Pleistocene, are known only from a handful of skeletal remains and limited genetic data, incl...

A hearty Denisovan stew ripe with stories of mixing and more mixing, even with a third more ‘archaic’ hominid.

www.biorxiv.org/content/10.1...

🐈🧬I recently presented the preliminary results of my first PhD chapter at Biología Investiga 2025, the scientific #outreach days organized by the @unisevilla.bsky.social

A great space for scientific exchange within the Faculty of Biology.

#PhDlife #WomenInSTEM #Genomics @ebdonana.bsky.social

We're excited to be recruiting an NIH funded postdoc to work in the Coop lab at UC Davis. We're specifically interested in candidates who are want to work at the intersection of human genetics, GWAS, and population genetics modeling. Please RT

I'm recruiting a postdoc for my group (based in beautiful Eugene, OR). Please get in touch if you're interested, esp if you'd like to chat at #ASHG25!

The persistence and loss of hard selective sweeps amid ancient human admixture https://www.biorxiv.org/content/10.1101/2025.10.14.682443v1

The Comparative Analysis of Lineage-Pair Traits Abstract. For many questions in ecology and evolution, the most relevant data to consider are attributes of lineage pairs. Comparative tests for causal rel

Now available in Systematic Biology, a new paper (and R package) in which we outline an approach to account for non-independence in comparative analyses of lineage-pair traits academic.oup.com/sysbio/advan...

We are searching for a technician in Next Generation Sequencing!

Come to our lab University of California, Berkeley Howard Hughes Medical Institute (HHMI)

See ad:

careerspub.universityofcalifornia.edu/psp/ucb/EMPL...

Take a look at my first preprint as a first author!
We analyse the effect of population structure in SMC methods and find two systematic biases that have indeed extra information about the population! We model the nature of these biases and find a link with the isolation of the population and Fst.

Mutation-selection-drift balance models of complex diseases Abstract. Genetic variation that influences complex disease susceptibility is introduced into the population by mutation and removed by natural selection a

academic.oup.com/genetics/adv...

I recently realized that I have overlooked mutational models. Especially, how it related to our ability to observe them.

Interpreting supervised machine learning inferences in population genomics using haplotype matrix permutations Abstract. Supervised machine learning methods, such as convolutional neural networks (CNNs), that use haplotype matrices as input data have become powerful

Working link: academic.oup.com/mbe/advance-...

The Length of Haplotype Blocks and Signals of Structural Variation in Reconstructed Genealogies Abstract. Recent breakthroughs have enabled the accurate inference of large-scale genealogies. Through modelling the impact of recombination on the correla

Delighted that our paper about the distribution of genomic spans of clades/edges in genealogies (ARGs), and using this for detecting inversions and other SVs (and other phenomena that cause local disruption of recombination) is out in MBE academic.oup.com/mbe/article/... (1/n)

A maternal-fetal PIEZO1 incompatibility as a barrier to Neanderthal-modern human admixture https://www.biorxiv.org/content/10.1101/2025.09.29.679417v1

Bridging forward-in-time and coalescent simulations using pyslim https://www.biorxiv.org/content/10.1101/2025.09.30.679676v1

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 !

Dialectical Biology Today: Legacies of Richard Lewontin -- Conference Registration A hybrid conference on the 40th anniversary of Richard Levins and Richard Lewontin's The Dialectical Biologist, to be held in person at the University of Toronto and online via zoom. Registration is…

📢 Register for the Dialectical Biologist anniversary event to explore different perspectives on the intersections of biology, philosophy, and politics. Available in-person or online. Reserve your spot today!

My explainer about the Yunxian 2 study

🚨 New preprint out!
We reconstructed parental haplotypes in >440k individuals (UK & Estonian biobanks) to estimate assortative mating directly in the parental generation.
This reveals intensified assortment in recent generations.
www.biorxiv.org/content/10.1...