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Reposted by Gregor Gorjanc

Ana Ignatieva @anaignatieva.bsky.social · 5d

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)

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

academic.oup.com

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Reposted by Gregor Gorjanc

Kyle Horton @kyle-horton.bsky.social · 13d

Truly impressive number of birds migrating tonight. More than 800 MILLION birds up in the air right now❗ #BirdMigration

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Gregor Gorjanc @gregorgorjanc.bsky.social · 14d

@epigenci.bsky.social this is a frequentist version of the Lara et al paper I shared on estimating genetic variance when using genomic data;)

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Reposted by Gregor Gorjanc

Simon Kuestenmacher @simongerman600.bsky.social · 14d

English is only my second language so I had no idea about many of the gendered animal names. Peahen is so obvious but I never had heard of it before. What’s news to you? HT @Iearnenglishtip

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Reposted by Gregor Gorjanc

Hanbin Lee @epigenci.bsky.social · 17d

Despite this being true, I feel that a lot of gems from the old days are lost in the present literature. People just do things as if those early findings don't exist.

José Cerca @naturalselection.bsky.social · 19d

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Reposted by Gregor Gorjanc

medRxivpreprint @medrxivpreprint.bsky.social · 19d

Within-family heritability estimates for behavioural and disease phenotypes from 500,000 sibling pairs of diverse ancestries https://www.medrxiv.org/content/10.1101/2025.09.17.25336022v1

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Reposted by Gregor Gorjanc

bioRxivpreprint @biorxivpreprint.bsky.social · Sep 2

SimHumanity: Using SLiM 5.0 to run whole-genome simulations of human evolution https://www.biorxiv.org/content/10.1101/2025.09.01.673541v1

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Reposted by Gregor Gorjanc

Hannes Becher @h-a-n.bsky.social · Sep 7

PCA for visualising large #pedigrees? Check out this brief and accessible blog post wp.me/pbTxyW-1ve @roslininstitute.bsky.social @highlanderlab.bsky.social Thanks to co-authors @epigenci.bsky.social @gregorgorjanc.bsky.social and Ros Craddock!

Visualising large pedigrees with PCA

Here is a brief post about our recent paper on using PCA to visualise large pedigrees. This is the result of a collaboration between Hanbin Lee (University of Michigan) and colleagues at the Roslin…

wp.me

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Reposted by Gregor Gorjanc

Hanbin Lee @epigenci.bsky.social · Sep 4

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

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Reposted by Gregor Gorjanc

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · Sep 3

Save the date! #PEQG26 June 9-12 2026 in Asilomar, CA. Happens only every 2yrs, but is my favorite conference. Full website coming soon, and registration and abstract submission opens November 14, but I'm allowed to tease that keynotes will be @jnovembre.bsky.social @jennytung.bsky.social and me!

Homepage - Population, Evolutionary, and Quantitative Genetics Conference

Visit our website to learn more.

genetics-gsa.org

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Chase W. Nelson 倪誠志 @chasewnelson.bsky.social · Sep 3

Announcing SimHumanity, a baseline SLiM 5.0 model of the full human genome, replete with demographic history, autosomes, X/Y, and mtDNA. A shared starting point for reproducible evolutionary simulations. We’d love your feedback! #SLiM #evolution #genomics www.biorxiv.org/content/10.1...

SimHumanity: Using SLiM 5.0 to run whole-genome simulations of human evolution

The reconstruction of human evolutionary history has undergone repeated advances, each made possible by methodological innovations. In recent decades, genetic and genomic data played a central role in...

www.biorxiv.org

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Hannes Becher @h-a-n.bsky.social · Aug 28

Our pedigree PCA article is now online on GSE: doi.org/10.1186/s127... Thanks @epigenci.bsky.social , @gregorgorjanc.bsky.social , Rosalind Craddock!

randPedPCA: rapid approximation of principal components from large pedigrees - Genetics Selection Evolution

Background Pedigrees continue to be extremely important in agriculture and conservation genetics, with the pedigrees of modern breeding programmes easily comprising millions of records. This size can ...

doi.org

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Jeffrey Ross-Ibarra @jrossibarra.bsky.social · Aug 27

This always blows my mind. Dude mapped qtl for a quantitative trait to a chromosome in 1923!

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · Aug 27

Related but cool combo of cytogenetics and phenotype. Know when the first QTL was mapped?

Sax, K. 1923. The association of size differences with seed coat pattern and pigmentation in Phaseolus vulgaris. Genetics 8:552-560.

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Luis Apiolaza @ojala.bsky.social · Aug 26

I'll be advertising a couple of PhD scholarships (breeding/wood quality, breeding/remote sensing) in the next couple of weeks, working with me and even cooler people at the School of Forestry, University of Canterbury, Christchurch, New Zealand. They cover uni fees + stipend for 3 years.

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Gregor Gorjanc @gregorgorjanc.bsky.social · Aug 21

Whoop whoop

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Reposted by Gregor Gorjanc

bioRxiv Genetics @biorxiv-genetic.bsky.social · Aug 17

Assessment of segregation variance estimates from derivation, simulations, and empirical data in autotetraploid species exemplified in potato https://www.biorxiv.org/content/10.1101/2025.08.13.670171v1

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Gregor Gorjanc @gregorgorjanc.bsky.social · Aug 11

Can you say more?

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Gregor Gorjanc @gregorgorjanc.bsky.social · Aug 11

Meiosis creates a wonderfully broad distribution of genetic and phenotypic values between siblings of the same parents as shown in a simple example below. This is often referred to as recombination, segregation, Mendelian sampling, etc.

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Gregor Gorjanc @gregorgorjanc.bsky.social · Aug 11

AlphaSimR course edin.ac/3wfGSEj Week 3 opens with a discussion on genetic variation between relatives, with a focus on siblings. While mutation is the ultimate source of genetic variation (by introducing new alleles), recombination shuffles the existing genetic variation through meiosis.

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Reposted by Gregor Gorjanc

Stephen Turner @stephenturner.us · Aug 7

Deep-learning-based gene perturbation effect prediction does not yet outperform simple linear baselines www.nature.com/articles/s41... 🧬🖥️🧪 #Rstats code github.com/const-ae/lin...

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Reposted by Gregor Gorjanc

Jan Broder Engler @jbengler.de · Aug 6

You can save #tidyplots in multiple formats by piping through multiple rounds of `save_plot()` 🤩

#rstats #dataviz #phd

library(tidyplots)

study |>
tidyplot(x = group, y = score, color = dose) |>
add_mean_dash() |>
add_sem_errorbar() |>
add_data_points_beeswarm() |>
save_plot("my_plot.pdf") |>
save_plot("my_plot.png") |>
save_plot("my_plot.svg")

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Reposted by Gregor Gorjanc

Graham Coop @gcbias.bsky.social · Aug 5

Looks like a great resource for teaching popgen inference.

Ryan Gutenkunst @ryangutenkunst.bsky.social · Aug 5

If you're new to demographic history inference from population genomics, try this webapp I created to illustrate how dadi fits bottleneck models to site frequency spectra: ryangutenkunst-dadi-two-epoch.hf.space . It even outputs files for submitting to the GHIST competition! ghi.st

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Reposted by Gregor Gorjanc

Jonathan Pritchard @jkpritch.bsky.social · Jul 29

Thanks! This is amazing! So the term 'Manhattan Plot' is not originally a GWAS term at all.

Screenshotting the image here from a 1994 book on nuclear physics, for others who may be interested:

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Reposted by Gregor Gorjanc

Jan Broder Engler @jbengler.de · Jul 29

This is how you can visualize time course data in #tidyplots ⏱️

#rstats #dataviz #phd

library(tidyplots)

time_course |>
tidyplot(x = day, y = score, color = treatment) |>
add_mean_line() |>
add_mean_dot() |>
add_sem_ribbon()

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Reposted by Gregor Gorjanc

Jonathan Pritchard @jkpritch.bsky.social · Jul 28

Does anyone know who first used the term "Manhattan Plot"?

Wikipedia links to a 2010 paper by Greg Gibson. I haven't yet found an earlier use, but Greg's phrasing suggests that he did not invent the term.
doi.org/10.1038/ng07...

Hints of hidden heritability in GWAS - Nature Genetics

Although susceptibility loci identified through genome-wide association studies (GWAS) typically explain only a small proportion of the heritability, a classical quantitative genetic analysis now argu...

doi.org

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