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DiegoHarta

@diegoharta.bsky.social

14 Posts121 Follower286 Folgt
Stu Cantrill@stuartcantrill.com · 5mo ago

Exactly the same article (same text, same authors) published in a range of journals at roughly the same time. Number of citations correlates (somewhat) with impact factor of the journal it was published in. Except in Croatia...

A slide called: 'Clinical trial registration: Looking back and moving ahead'; on the left are a list of journals listed with their impact factors and number of citations the named article received in that journal. On the right is a plot of numbers of citations vs impact factor.
Nico Rascovan@nrascovan.bsky.social · 5mo ago

¿Cómo llegó la agricultura al sur de los Andes? ¿Por migración o transmisión cultural? Nuestro nuevo paper en @nature.com combina ADN antiguo, isótopos, arqueología y paleoclima para reconstruir más de 2.000 años de historia en Uspallata, Mendoza. www.nature.com/articles/s41... Abro hilo🧵 (1/28+)

Local agricultural transition, crisis and migration in the Southern Andes - Nature

In the Uspallata Valley, agriculture was adopted by local populations, as evidenced by genetic continuity from earlier hunter-gatherers to farmers; maize-dependent groups from the same regional p...

nature.com

Marc Robinson-Rechavi@marcrr.ecoevo.social.ap.brid.gy · 5mo ago

RE: https://ecoevo.social/@marcrr/115656029348896562 Update of our preprint on detecting selection on regulatory sequences! We notably added an analysis for human, where the likelihood test per ChIPseq peak lacks power. There is a similar problem with branch-site dN/dS tests, and a solution has […]

Original post on ecoevo.social

ecoevo.social

Marc Robinson-Rechavi@marcrr.ecoevo.social.ap.brid.gy · 8mo ago

I'm excited to present this new model to detect positive selection on regulatory sequences, which has been 3 years in the making! Thanks to Alexandre Laverré and @Phylogenetrips for their amazing work on this project. 😃 https://doi.org/10.1101/2025.11.26.690685 #bioinformatics #molecularEvolution

Graphical summary of the evolutionary model, in 4 rows, A to D. A: left, bell shaped distribution of phenotypic changes; right, observed substitutions between an ancestral sequence and a modern one, using an outgroup. B: 4 fitness landscapes: no selection, alpha=beta=1, uniform distribution; stabilizing selection, alpha=beta≠1, bell shape; directional selection, either alpha>beta, curve skewed right, or alpha<beta, curve skewed left. C: 4 distributions which are the product of the distribution in A and each of the fitness landscapes. Observed subtitutions are mapped onto them, falling outside of the high density area except for the third, i.e. directional selection alpah>beta. D: cartoon likelihood indicating that only the third fitness landscape is supported.
PLOS Biology@plosbiology.org · 5mo ago

In support of #OpenScience, we routinely ask authors to openly share their #research #code before publication. We are now formalizing this practice with a mandatory #CodeSharing policy and clarifying what we mean by code sharing.

Formalizing our commitment to code sharing

In support of open science, PLOS Biology routinely asks authors to openly share their research code before publication. We are now formalizing this practice with a mandatory code sharing policy and…

plos.io

Richard Sever@richardsever.bsky.social · 5mo ago

Huge spectrum of views on this. At one end, visions of a living 'article of the future' with embedded data in wondrous new formats. At the other, "just a PDF". What is most interesting to me is that someone's position on that spectrum does not correlate with how tech savvy they are. 1/n

Grace Lindsay@neurograce.bsky.social · 5mo ago

Totally agree. I'm even fine with PDFs remaining the primary research delivery system. In addition to the practical challenges, fancier ways of sharing research too quickly become a way for authors to avoid identifying key conclusions, which is actually an important part of the scientific process.

Saoirse Kelleher@saoirsekelleher.eco · 5mo ago

Coming up in March! Join @sortee.bsky.social for a webinar with @daxkellie.bsky.social on good, shareable, and reproducible R code - register here: events.humanitix.com/sortee-webin...

SORTEE Webinar: On what makes good sharable and reproducible R code, how to do it, and why it’s good for science

For this month's SORTEE webinar, Dr. Dax Kellie from the Atlas of Living Australia will present on good, sharable, and reproducible R code in science

events.humanitix.com

Aline Muyle@aline-muyle.bsky.social · 5mo ago

I am hiring a Postdoc (18 months contract in Montpellier, France) to study how polyploidy affects sex chromosomes in the plant Silene latifolia, using bioinformatic analyses of RNA-seq and DNA-seq data. Deadline for applications March 24th. euraxess.ec.europa.eu/jobs/412961

Post doc position in Evolutionary biology and bioinformatics

- work environment: This postdoctoral position will be supervised by Aline Muyle and hosted at the Institute of Evolutionary Sciences of Montpellier (ISEM), within the CHANGE department and the Plant ...

euraxess.ec.europa.eu

Juan Antonio Rodríguez@jrotwitguez.bsky.social · 5mo ago

🔊💥 How is sex determined? How is it encoded in the #3Dgenome? Read all about it in our last paper! www.nature.com/articles/s41... It’s been looong but feels satisfying to see this finally out. (With CapelLab, @dariloops.bsky.social Lab and @mamartirenom.bsky.social Lab) 🧵👇

Chromatin spatial analysis by METALoci unveils sex-determining 3D regulatory hubs - Nature Structural & Molecular Biology

METALoci, a new three-dimensional genome computational tool, reveals a major rewiring of regulatory interactions during sex determination. By combining this method with transgenic models, the authors ...

nature.com

Peer Community In@peercommunityin.bsky.social · 6mo ago

We are thrilled to announce Paolo Crosetto's presentation titled "The Drain of Scientific Publishing: Why Publishing Has Become a Challenge for Science and How It Can Be Improved" in our upcoming PCI Webinar on March 19th at 4 PM (GMT+1)!! 🤩 To learn more and sign up, please visit buff.ly/bxYWPCz

PCI Webinar Series - Peer Community In

The PCI webinar series is a series of seminars on research practices, publication practices, evaluation, scientific integrity, meta-research, organised by Peer Community In

peercommunityin.org

David Enard@denard.bsky.social · 6mo ago

To add one thing: if you have the data to run both classic dN/dS tests and MK tests, choose the latter. dN/dS tests are blind to positive selection in the important, constrained proteome, while MK test will work regardless of constraint, if DFE well estimated. #evolution #adaptation #popgen

David Enard@denard.bsky.social · 6mo ago

1/5) Re-reading this excellent paper on using mutation-selection balance models to quantify positive selection. The discussed lack of congruence between MK approaches and classic dN/dS test is entirely unsurprising, see thread below. www.pnas.org/doi/10.1073/...

Thomas Lesaffre 🌱@thomaslesaffre.bsky.social · 6mo ago

🌺 New preprint out with John Pannell and @charlesmullon.bsky.social ! 🌺 We show that selection broadly favours a form of plasticity for the selfing rate where individuals adjust their mating behaviour to their condition — their overall vitality owing to their genetic background and environment. ⤵️

bioRxiv Evolutionary Biology@biorxiv-evobio.bsky.social · 6mo ago

The evolution of condition-dependent self-fertilisation https://www.biorxiv.org/content/10.64898/2026.02.15.705963v1

Kaiser Lab@clocksevolution.bsky.social · 6mo ago

Congratulations to everyone involved! Below is the link to the article. @luisapallares.bsky.social @nedabarghi.bsky.social @rachaelabay.bsky.social @ahancock.bsky.social @genmig.bsky.social @meauxjuliette.bsky.social @abepalmer.bsky.social @kjschmid.bsky.social @mpi-evolbio.bsky.social

Beyond Mendel: a call to revisit the genotype–phenotype map through new experimental paradigms

Abstract. The long-standing notion that genotypes map to phenotypes through simple one gene–one trait relationships continues to shape both research in the

academic.oup.com

MPI for Evolutionary Biology@mpi-evolbio.bsky.social · 6mo ago

Beyond Mendel: a new genetics agenda Most traits aren’t “one gene–one trait”. A Genetics perspective calls for new experimental paradigms to capture polygenic effects in real environmental context—backed by large-scale automated phenotyping and new infrastructure. www.evolbio.mpg.de/3866699/news...

Charles Mullon@charlesmullon.bsky.social · 6mo ago

New paper with @vsudbrack.bsky.social. Using pop gen modelling, we show that partial selfing makes selection on tandem repeats more efficient, reducing the associated load across different scenarios. Thanks to @snsf.ch @dee-unil.bsky.social @fbm-unil.bsky.social ! www.nature.com/articles/s41...

The evolution of tandem repeat sequences under partial selfing and different modes of selection - Heredity

Heredity - The evolution of tandem repeat sequences under partial selfing and different modes of selection

nature.com

DiegoHarta@diegoharta.bsky.social · 6mo ago

If you are a scientist, working on biology, wondering where to submit your manuscript given the current issues with the academic publishing system, check out wheretopublish.github.io! We did this thinking change is possible. Let’s make it happen!

Where to Publish?

wheretopublish.github.io

Nicolas Clairis@nclairis.bsky.social · 6mo ago

Dear all, I'm happy to present you a side project done with @diegoharta.bsky.social @phylogenetrips.bsky.social & Lucas Baudouin regarding the publication landscape in Biology: wheretopublish.github.io 1/4

Davide Bozzi@davidebozzi.bsky.social · 7mo ago

Treponemal diseases might have been with us much longer than previously thought! In our recent study, we used ancient DNA to reconstruct a 5,500-year-old 𝘛𝘳𝘦𝘱𝘰𝘯𝘦𝘮𝘢 𝘱𝘢𝘭𝘭𝘪𝘥𝘶𝘮 genome, revealing a previously unknown divergent subspecies. You can check it out here: www.science.org/doi/10.1126/...

A 5500-year-old Treponema pallidum genome from Sabana de Bogotá, Colombia

Treponematosis, a bacterial infection caused by Treponema pallidum subspecies and T. carateum (yaws, bejel, syphilis, pinta), has afflicted humans for millennia. Despite paleopathological evidence and...

science.org