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Reposted by Natanael Spisak

bioRxiv Genetics @biorxiv-genetic.bsky.social · 10d

Mutation bias in driver genes reveals the distribution of effects of oncogenic mutations https://www.biorxiv.org/content/10.1101/2025.09.25.678277v1

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Reposted by Natanael Spisak

bioRxiv Genetics @biorxiv-genetic.bsky.social · 19d

Sex differences in transcription-associated mutagenesis in the human germline https://www.biorxiv.org/content/10.1101/2025.09.18.677082v1

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Reposted by Natanael Spisak

Trevor Graham @trevorgraham.bsky.social · 28d

Studying cancer evolution needs multi-region or single cell seq for phylogenetics, right? Amazingly (I think!) we found single-sample bulk methylation suffices, via analysis of "fluctuating methylation". In @nature.com today led by brilliant @calumgabbutt.bsky.social www.nature.com/articles/s41...

Fluctuating DNA methylation tracks cancer evolution at clinical scale - Nature

Cancer evolutionary dynamics are quantitatively inferred using a method, EVOFLUx, applied to fluctuating DNA methylation.

www.nature.com

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Natanael Spisak @natanaels.bsky.social · Sep 5

Thanks! Indeed, it seems that the NMF model assumptions are correct and there is little interaction between signatures (at least at the level of 96 mutation types). There are exceptions, such as SBS2 and SBS13, which are both due to APOBEC deamination, SBS7* signatures (UV), and then SBS5.

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Natanael Spisak @natanaels.bsky.social · Sep 3

Very happy to share our work on signature SBS5. See Molly's thread for a short summary

Molly Przeworski @mollyprz.bsky.social · Sep 2

In these dark times, it comes as a rare pleasure to highlight @natanaels.bsky.social ‬ & @marcdemanuel.bsky.social's work on germline and somatic mutations in humans. 1/n
www.biorxiv.org/cgi/content/...

Collateral mutagenesis funnels multiple sources of DNA damage into a ubiquitous mutational signature

Mutations reflect the net effects of myriad types of damage, replication errors, and repair mechanisms, and thus are expected to differ across cell types with distinct exposures to mutagens, division ...

www.biorxiv.org

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Craig Anderson @craigandersn.bsky.social · Aug 19

Would you like to do some unique experiments in cancer genomics and mutagenesis, in beautiful Munich? Well then apply for this PhD position: jobs.dkfz.de/en/jobs/1679...

You'll learn a lot and it'll be fun and interesting!
#DKTK @dkfz.bsky.social @lmumuenchen.bsky.social

PhD Student in Mutational Processes Driving Somatic Evolution

jobs.dkfz.de

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Hakhamanesh Mostafavi @hakha.bsky.social · Jul 25

I'm thrilled that my lab at NYU is now supported by an NIH MIRA grant! I'm looking to hire 1-2 senior lab members (outstanding postdoc candidates or experienced staff scientists) with expertise in computational or statistical methods in human genetics or genomics. Please share!

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Roli Roberts @roliroberts.bsky.social · Jul 22

Those who enjoyed the plenary talk from @mollyprz.bsky.social this morning at #SMBE2025 might like to read more about this work in this 2024 @plosbiology.org paper with @natanaels.bsky.social &co: journals.plos.org/plosbiology/...

The clock-like accumulation of germline and somatic mutations can arise from the interplay of DNA damage and repair

The rate at which DNA mutations accumulate varies substantially across cell types and tissues in the human body, but the origin of these differences is not well understood. This study develops a model...

journals.plos.org

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Reposted by Natanael Spisak

Hakhamanesh Mostafavi @hakha.bsky.social · Jun 17

It was fun writing this short piece on the omnigenic model. Sharing it here, though it's a painful time as my family, along with millions of others, is at risk in Iran and the region.

Nature Reviews Genetics @natrevgenet.nature.com · Jun 16

New online! Making sense of the polygenicity of complex traits

Making sense of the polygenicity of complex traits

Nature Reviews Genetics, Published online: 16 June 2025; doi:10.1038/s41576-025-00866-7Hakhamanesh Mostafavi recalls a landmark paper by Boyle et al. on the omnigenic model, which proposed that complex traits are influenced by thousands of genes across the genome, including many that are only indirectly related to a trait through regulatory networks.

www.nature.com

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Reposted by Natanael Spisak

Quaid Morris @quaidmorris.bsky.social · Jun 3

Please check out our new approach to modeling somatic mutation signatures.

DAMUTA has independent Damage and Misrepair signatures whose activities are more interpretable and more predictive of DNA repair defects, than COSMIC SBS signatures 🧬🖥️🧪

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

Damage and Misrepair Signatures: Compact Representations of Pan-cancer Mutational Processes

Mutational signatures of single-base substitutions (SBSs) characterize somatic mutation processes which contribute to cancer development and progression. However, current mutational signatures do not ...

www.biorxiv.org

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Reposted by Natanael Spisak

Jonathan Pritchard @jkpritch.bsky.social · May 17

Elegant new theory on polygenic adaptation by Will Milligan, Laura Heyward, and Guy Sella.

bioRxiv Evolutionary Biology @biorxiv-evobio.bsky.social · May 17

When should adaptation arise from a polygenic response versus few large effect changes? https://www.biorxiv.org/content/10.1101/2025.05.15.654234v1

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Chiara Masnovo @chiaramasnovophd.bsky.social · May 16

Having a hard time processing this. HHMI is pausing all competitions. Very demoralizing for early career scientists like me @hhmi.org

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Sarah Aitken @s-j-aitken.bsky.social · Mar 26

My lab at hiring! - we have TWO postdoc positions (one computational, one wet lab focussed) at Yale @yaleschoolofmed.bsky.social, working closely with our group members at University of Cambridge, UK @cambridgeuni.bsky.social

Please help to spread the word!

Adverts with full details below ⬇️

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Reposted by Natanael Spisak

Marc de Manuel @marcdemanuel.bsky.social · Nov 25

📣 Two ERC-funded positions are available in the lab! If you are interested in exploring the mechanisms underlying mutation, we’d love to hear from you.

PhD: shorturl.at/Oc04N
Postdoc: shorturl.at/1ShHB

RPs and shares would be greatly appreciated!
🧪🧬🖥️ #ScienceJobs #PostdocJobs

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Reposted by Natanael Spisak

zara weinberg @weinberz.witchlab.org · Nov 21

UCSF hosted its first food pantry event for postdocs today, where a local food bank gives free food to UCSF employees.

This picture represents about half the line that had formed 10 minutes before the market had opened.

What the fuck are we doing here guys?

A crowd of people wraps around a hallway. About 25-30 people are visible

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Reposted by Natanael Spisak

Carla Hoge @choge.bsky.social · Nov 12

Do people know about the STEM Jobs feed? Seems useful to put related job postings together in one place. #ScienceJobs

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Djivan Prentout @djivanp.bsky.social · Sep 6

1/ A thread about mutation and recombination in vertebrates and what we learned by studying three-generation pedigrees of zebra finches. Take home: the remarkable similarities between birds and mammals in many properties of these fundamental processes.

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

Conservation of mutation and recombination parameters between mammals and zebra finch https://www.biorxiv.org/content/10.1101/2024.09.05.611523v1

Most of our understanding of the fundamental processes of mutation and recombination stems from a ha

www.biorxiv.org

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Reposted by Natanael Spisak

Molly Przeworski @mollyprz.bsky.social · Jun 18

@natanaels.bsky.social's work modeling how mutations accumulate with age and time, now out in PLoS Biology (joint with @marcdemanuel.bsky.social, William Milligan & Guy Sella): journals.plos.org/plosbiology/...

The clock-like accumulation of germline and somatic mutations can arise from the interplay of DNA damage and repair

The rate at which DNA mutations accumulate varies substantially across cell types and tissues in the human body, but the origin of these differences is not well understood. This study develops a model...

journals.plos.org

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Reposted by Natanael Spisak

Andres Bendesky @bendeskylab.com · Feb 9

Come join us in the Zuckerman Institute at Columbia on May 17th for the 2024 New York Area Population Genetics Meeting.
Keynotes by Lindy McBraide and Cedric Feschotte
Register here zuckermaninstitute.columbia.edu/new-york-are...

NYAPG24

Join us on Friday, May 17, 2024 for an all-day conference hosted at Columbia’s Zuckerman Institute showcasing research in evolutionary genetics. Alongside formal presentations, the conference will enc...

zuckermaninstitute.columbia.edu

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