caseybergman.bsky.social - Profile | ThreadSky | a Reddit-style client for Bluesky

Michael Ashburner FRS was an influential figure in the fields of Drosophila genomics and early sequencing database initiatives such as @ebi.embl.org. Read about their contributions across genetics and bioinformatics in the new biographical memoir: buff.ly/f01zNat @geneticscam.bsky.social‬

submitted 3 days ago • 2 comments

Could horizontal transfer be abundant not just in bacteria but also in eukaryotes? A recent work by Pianezza R, Haider A, Scarpa A, Signor S and Kofer R finds 3 HTs of transposons in a mere 30years. academic.oup.com/mbe/advance-... #evolution #drosophila

submitted 3 days ago • 0 comments

Pangenome-aware DeepVariant https://www.biorxiv.org/content/10.1101/2025.06.05.657102v1

submitted 13 days ago • 1 comment

Slides from my talk (with @kamilsjaron.bsky.social) on an history of k-mers in bioinformatics: rayan.chikhi.name/pdf/2025-kme...

submitted 17 days ago • 1 comment

A new simulation pipeline enhances benchmarking of transposon polymorphism detection tools genomics.peercommunityin.org/articles/rec...

submitted 24 days ago • 0 comments

One of the fun things about having a bit of notoriety and a semi-rare last name is that people send me photos and other memories of distant family members... like this photo of a postcard of my great-grandfather, BG Alfred Andrews Starbird (1875-1956), on a horse:

submitted 27 days ago • 1 comment

The program for Evolution 2025 is now live! Talk schedules for both the virtual and in-person meetings can be found here: www.xcdsystem.com/evolution/pr... @sse-evolution.bsky.social @systbiol.bsky.social @asn-amnat.bsky.social #Evol2025

submitted 35 days ago • 0 comments

Clever new BUSCO-like method to evaluate the quality of pangenome graphs www.biorxiv.org/content/10.1...

submitted 37 days ago • 0 comments

Wonderful summary of the life and work of an incomparable scientist, whose contributions laid the foundation for genome biology and bioinformatics. Thank you Steve and Rachel for writing this piece 🙏

submitted 49 days ago • 0 comments

Rachel Drysdale and I prepared a biographical memoir for Michael Ashburner, now published at: royalsocietypublishing.org/doi/10.1098/...

submitted 49 days ago • 0 comments

Along with every geneticist I am a total Mendel groupie and this new figure (www.nature.com/articles/s41...) that shows the chromosome location and underlying basis of his allelic pairs moves me to near-tears. Oh, to fly back in time and show this to him ...

submitted 55 days ago • 1 comment

The rest of Mendel's alleles characterized! So, out of 7 traits, 3 caused by TE insertions!!! (though apparently there are two different green alleles, one cause by a TE insertion, but another a promoter deletion allele) www.nature.com/articles/s41...

submitted 55 days ago • 1 comment

It’s out! The evolutionary origins of yeast point centromeres uncovered! “Ancient co-option of LTR retrotransposons as yeast centromeres” www.biorxiv.org/content/10.1...

submitted 56 days ago • 2 comments

Excited to do a postdoc in beautiful Neuchatel / Switzerland🇨🇭? We have several postdoc positions open at the moment! Check our website for the full ads here: pathogen-genomics.org/jobs Happy to answer any question and please spread the word to anyone who might be interested!

submitted 56 days ago • 1 comment

Register today for the EMBO course on #genome sequencing, assembly, curation, and downstream analyses meetings.embo.org/event/25-gen...

submitted 67 days ago • 0 comments

Aneuploidy is the leading cause of pregnancy loss. In work led by @saracarioscia.bsky.social and @aabiddanda.bsky.social, we reanalyzed genetic testing data from 139,416 IVF embryos to discover variants associated with recombination phenotypes and aneuploidy risk. www.medrxiv.org/content/10.1...

submitted 74 days ago • 1 comment

I am so happy to see this manuscript finally out!!! We review and discuss all analysis steps in long reads transcriptomics. Hope the community finds this useful! Hugo thanks to @carolinamonzo.bsky.social and @tianyuanliu.bsky.social for the huge work!!! @longtrec.bsky.social @hitseq.bsky.social

submitted 84 days ago • 2 comments

This is an important contribution in the short read TE detection/genotyping field.

submitted 87 days ago • 1 comment

Another bright light gone far too soon. Shu-Mei was much beloved in the #UGA plant science community. www.dignitymemorial.com/obituaries/a...

submitted 95 days ago • 0 comments

Hats off to Jessie Kissinger who has done so much to build up bioinformatics at UGA

submitted 98 days ago • 0 comments

📣 EMBL-EBI leadership update Jo McEntyre will step into the role of Interim Director of EMBL-EBI, as Ewan Birney transitions to a new position as Executive Director of EMBL following Edith Heard’s upcoming departure. www.ebi.ac.uk/about/news/a...

submitted 99 days ago • 1 comment

RepeatMasker 4.1.8 released. A major update to ProcessRepeats has significantly reduced RepeatMasker's memory requirements. Additionally, RepeatMasker now supports the new FamDB 2.0.0 format introduced in Dfam 3.9. See the www.repeatmasker.org for more release details.

submitted 99 days ago • 0 comments

Phyloformer is finally published in MBE! 🎉 academic.oup.com/mbe/advance-... The thread below provides a summary of our neural network for likelihood-free phylogenetic reconstruction.

submitted 100 days ago • 0 comments

The Computational Pangenomics online course with @andreaguarracino.bsky.social is almost full - only 2 seats left! If interested, please check it out: physalia-courses.org/courses-work...

submitted 107 days ago • 0 comments

Our new paper on the P-element invasion in D.simulans mobilednajournal.biomedcentral.com/articles/10....

submitted 114 days ago • 0 comments

Want to level up in #pangenomics? Join our workshop, conference & biohackathon in #Memphis, May 11-15, 2025. Connect with leading scientists, embrace genomic diversity, and contribute to cutting-edge software. Register now! pangenome.github.io/MemPanG25/ #Bioinformatics #MemPanG25

submitted 115 days ago • 2 comments

The PopGen Vienna Seminar series schedule is ready for the next term (Mar-Jun). It's jam-packed with fantastic speakers in #evolution, #genetics, #genomics, #popgen, and more! Details and streaming link signup can be found on our website www.popgen-vienna.at/news/seminars/

submitted 127 days ago • 0 comments