iiinova — where your digital self keeps evolving

Claudia C. Weber @cc7740.bsky.social · 24/06/2026

Mine is almost cheating: Uppsala - Stockholm - Malmö - Copenhagen.

Claudia C. Weber @cc7740.bsky.social · 07/03/2026

Considering I saw a bee disappearing into a hole in one of my balcony planters carrying a piece of leaf on two occasions, there are probably some optimistic bees around.

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Claudia C. Weber @cc7740.bsky.social · 12/08/2025

My parents were contemplating a holiday in Sweden in October, and pointed out it was recently 30°C in Abisko

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Claudia C. Weber @cc7740.bsky.social · 10/08/2025

Ah, köttbilar, the famous Swedish meat cars.

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Claudia C. Weber @cc7740.bsky.social · 10/08/2025

LLMs would make great conspiracy theorists though. I was trying to identify the the hashing function used to map an identifier to a directory path, and the model claimed that my system is compromised because the output didn't match the prediction. Nope, my guess about the input was wrong...

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Claudia C. Weber @cc7740.bsky.social · 21/07/2025

Wouldn't want anyone's PMDD to go away, so they can "feel their emotions".

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Claudia C. Weber @cc7740.bsky.social · 13/07/2025

I'm more bemused by the lack of exterior blackout shutters. My grandma's house in Germany was nowhere near as warm as my apartment in Cambridge last week, even though it had hit 36°C there. It's as though I never left my top floor Philly row house apartment that didn't have window AC in the kitchen

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Reposted by Claudia C. Weber

EMBL-EBI @ebi.embl.org · 16/06/2025

If EMBL-EBI managed data resources have ever saved you time & effort, this is your chance to give back! Fill in a 15-minute survey to help us: 🌍Demonstrate the real-world impact of our resources 🤓Understand your needs 🌟Secure continued funding Closes 16 July www.surveymonkey.com/r/QGFMBH8?ch...

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Reposted by Claudia C. Weber

Ore Francis @orefrancis.bsky.social · 13/06/2025

Proud to have authored this review with brilliant people. Hope we inspire more attempts to sequence the #protist genomes that are within reach! Huge thanks to Alexandra Schoenle for leading. #ProtistsOnSky authors.elsevier.com/sd/article/S...

authors.elsevier.com

ScienceDirect.com | Science, health and medical journals, full text articles and books.

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Claudia C. Weber @cc7740.bsky.social · 23/05/2025

That's roughly how my maternal grandfather who was born in Transylvania pronounced it...

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Reposted by Claudia C. Weber

Amjad Khalaf 🇵🇸 @amjadkhalaf.bsky.social · 16/05/2025

New preprint! We generate 40 new high-quality microsporidian genomes from infected arthropod hosts that were sequenced to create reference genomes by the Darwin Tree of Life project. 8 of our genomes are chromosome-level, and we’re able to generate Hi-C data for 7! 🧬 www.biorxiv.org/content/10.1...

biorxiv.org

Forty New Genomes Shed Light on Sexual Reproduction and the Origin of Tetraploidy in Microsporidia

Microsporidia are single-celled, obligately intracellular parasites with growing public health, agricultural, and economic importance. Despite this, Microsporidia remain relatively enigmatic, with man...

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Reposted by Claudia C. Weber

bioRxivpreprint @biorxivpreprint.bsky.social · 15/05/2025

Forty New Genomes Shed Light on Sexual Reproduction and the Origin of Tetraploidy in Microsporidia www.biorxiv.org/content/10.1101/202…

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Claudia C. Weber @cc7740.bsky.social · 23/04/2025

68-year-old men who are on gear?

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Claudia C. Weber @cc7740.bsky.social · 20/04/2025

First cooperative butterfly of the year

Speckled Wood butterfly perching on a twig

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Claudia C. Weber @cc7740.bsky.social · 16/04/2025

It's a bit of a theoretical one ;)

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Claudia C. Weber @cc7740.bsky.social · 15/04/2025

We wrote about encoding amino acids as ambiguous observations of codons (and the resulting loss of information) here: academic.oup.com/sysbio/artic... @uperron.bsky.social

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Claudia C. Weber @cc7740.bsky.social · 03/04/2025

I think you can keep the topology fixed in FastME if you tell it to only optimise the branch lengths

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Reposted by Claudia C. Weber

Claudia C. Weber @cc7740.bsky.social · 21/03/2025

Our paper on myxozoan genomes is out now in G3! See thread below for a brief recap (slight change of title from the preprint, same content). Thank you also to @arunsethuraman.bsky.social for handling the manuscript and @joannamasel.bsky.social for helpful comments. academic.oup.com/g3journal/ad...

academic.oup.com

Myxozoan parasite genomes assembled from contaminated host data reveal extensive gene order conservation and rapid sequence evolution

Abstract. Myxozoans are obligate endoparasites that belong to the phylum Cnidaria. Compared to their closest free-living relatives, they have evolved highl

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Reposted by Claudia C. Weber

Andrew Mongue @ajmongue.bsky.social · 21/03/2025

Excited to be part of this project! Follow the starter pack for more great repro evo researchers!

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Claudia C. Weber @cc7740.bsky.social · 13/03/2025

There was an edited extract from the O'Sullivan one in the Graun a few days ago (a bit too anecdotal for my personal liking).

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Claudia C. Weber @cc7740.bsky.social · 28/02/2025

Yep, I was watching thinking "Ah, I know who this reminds me of".

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Reposted by Claudia C. Weber

Royal Society Publishing @royalsocietypublishing.org · 14/02/2025

Adaptation to life on land evolved multiple times in arthropods, but what about isopods? Join us on Weds 26 Feb at 2pm (UK) to hear #ProcB author @jessthorpemas.bsky.social discuss her work on this key ecological transition. Find out more & sign up: cassyni.com/events/VVbok...

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Claudia C. Weber @cc7740.bsky.social · 06/02/2025

Barking might be an option for some of them too.

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Claudia C. Weber @cc7740.bsky.social · 13/12/2024

I find the lack of curiosity bemusing. It's one thing to interview quacks, and another to actually let a quack diagnose you based on a brain scan.

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Claudia C. Weber @cc7740.bsky.social · 04/12/2024

Hmm, the kestrel is clearly the lookout.

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Claudia C. Weber @cc7740.bsky.social · 02/12/2024

I was wondering where mine had gone

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Claudia C. Weber @cc7740.bsky.social · 25/11/2024

Bokeh also comes with a few palettes designed to be accessible docs.bokeh.org/en/latest/do... (it gets trickier when the points don't nicely separate into distinct areas)

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Claudia C. Weber @cc7740.bsky.social · 23/11/2024

People define terms as it suits them in the moment. Someone sifted out my application because they didn't think I was qualified to do bioinformatics. When I later encountered them at a meeting, they looked at my badge, saw that it had EMBL-EBI on it, and asked "So, are you a bioinformatician?"...

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Claudia C. Weber @cc7740.bsky.social · 23/11/2024

I don't need you interfering with my selection.

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Claudia C. Weber @cc7740.bsky.social · 20/11/2024

It is unclear how I made it to high school (forgot to hand in the written part of an assignment in PE).

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Claudia C. Weber @cc7740.bsky.social · 16/11/2024

Hey, we already have "marginally stable" (but don't ask me to put a number on that).

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Claudia C. Weber @cc7740.bsky.social · 16/11/2024

My grandma's response to trying cumin seeds for the first time: "Tastes like petroleum".

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Claudia C. Weber @cc7740.bsky.social · 16/11/2024

There was a GWAS preprint about it...

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Claudia C. Weber @cc7740.bsky.social · 16/11/2024

The real question is whether they like marmite

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Claudia C. Weber @cc7740.bsky.social · 14/11/2024

I hear you have to prune them, to avoid long branch attraction.

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Claudia C. Weber @cc7740.bsky.social · 07/11/2024

Both genomes have now made it into ENA.

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Claudia C. Weber @cc7740.bsky.social · 07/11/2024

Thanks to @GeneticsGSA for featuring my paper on using Variational Autoencoders to identify contamination in long-read data in the latest issue of G3: academic.oup.com/g3journal/ar... A short thread written when the manuscript was first submitted: bsky.app/profile/cc77...

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Claudia C. Weber @cc7740.bsky.social · 04/11/2024

The result: One Kudoa genome assembly that is near-chromosomal, and another that is contiguous enough to look at gene order conservation... Data have been submitted to ENA (see github.com/CobiontID/Ku... for more info). If you're wondering what on earth a VAE is: doi.org/10.1093/g3jo...

Chromatin contact map for Kudoa neothunni, showing three inferred chromosomes

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Claudia C. Weber @cc7740.bsky.social · 04/11/2024

To retrieve the rest of the genomes, we went back to the reads. Neither sample contained much parasite sequence (dark colours indicate low coverage). Meta-assembly worked well in one case. In the second case, removing the majority of fish reads based on VAE embeddings made the assembler's job easier

A) VAE embeddings of read tetranucleotide content for the Trachurus trachurus sample, coloured by median 31-mer occurrence across the whole set. Darker colours indicate low k-mer coverage. A cluster of low-coverage myxozoan reads is visible on the right. B) K-mer histograms showing the entire dataset (blue, upper curve), and the selection corresponding to the parasite (green, lower curve)

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