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Reposted by Sara Carioscia

Matthew Aguirre @aguirre404.bsky.social · Aug 22

Thrilled to share the second half of my PhD work here!

We show how data on expression quantitative trait loci (eQTL) relates to the structure of gene regulatory networks (GRN). Much of the GRN / eQTL picture is unmapped, but what we do have says a lot… (1/)

doi.org/10.1101/2025...

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Sara Carioscia @saracarioscia.bsky.social · Jul 23

has adding a pet to your vscode helped??? tonybaloney.github.io/vscode-pets/

VS Code Pets

tonybaloney.github.io

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Reposted by Sara Carioscia

Meru Sadhu @merusadhu.bsky.social · Jul 14

New paper from my lab! We describe our idea that high-throughput pooled experimental methods – typically used to test thousands of hypotheses at once – also have huge potential to help in “everyday” experiments testing one or a few focused hypotheses. Why? Two reasons: doi.org/10.1093/g3jo...

Validate User

doi.org

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Sara Carioscia @saracarioscia.bsky.social · Jun 23

It’s done!!! ☺️ @wmata.com

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Reposted by Sara Carioscia

Vikram Shivakumar @vikramshivakumar.bsky.social · Jun 17

Really excited to see this published! To more mum-finding 🍻

Ben Langmead @benlangmead.bsky.social · Jun 17

Now published! Note that since Vikram's original post (quoted here), he's made it easy to dynamically update a set of multi-MUMs (e.g. when more genomes are added to a pangenome) and to find multi-MUMs for huge collections like HPRCv2 genomebiology.biomedcentral.com/articles/10....

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Reposted by Sara Carioscia

Vikram Shivakumar @vikramshivakumar.bsky.social · May 27

Excited to share a new update to Mumemto, scaling MUM and conserved element finding to any size pangenome! Preprint out now w/ @benlangmead.bsky.social.
Mumemto scales to the new HPRC v2 release and beyond, and can merge in future assemblies without any recomputation! 1/n

Partitioned Multi-MUM finding for scalable pangenomics

Pangenome collections are growing to hundreds of high-quality genomes. This necessitates scalable methods for constructing pangenome alignments that can incorporate newly-sequenced assemblies. We prev...

www.biorxiv.org

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Sara Carioscia @saracarioscia.bsky.social · May 23

😭😭🥰🥰

Rajiv McCoy @rajivmccoy.bsky.social · May 23

Congrats to Dr. @saracarioscia.bsky.social and Dr. Dylan Taylor!!

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Sara Carioscia @saracarioscia.bsky.social · May 16

Thank you!! 😁

Sara Carioscia @saracarioscia.bsky.social · May 16

I'm defending my PhD next Friday, May 23!(!!!!). I'll be highlighting our work looking at aneuploidy in early human development. If you're interested I'd love to have you join via Zoom (DM me for info) or on the Homewood campus!

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Reposted by Sara Carioscia

Arjun Biddanda @aabiddanda.github.io · May 15

Really cool work from @arun-das.bsky.social on recovering sequence from unmapped reads (even with T2T reference or HPRC pangenomes!). Can recover a decent amount of sequence per individual using these approaches. Check it out!

Arun Das @arun-das.bsky.social · May 15

Our pre-print on investigating variation in South Asian genomes is now out!

Thank you to @mikeschatz.bsky.social, @rajivmccoy.bsky.social and @aabiddanda.bsky.social for all their work on this.

🧵 A thread on the key results and takeaways from our work:

bioRxiv Genomics @biorxiv-genomic.bsky.social · May 15

Assembling unmapped reads reveals hidden variation in South Asian genomes https://www.biorxiv.org/content/10.1101/2025.05.14.653340v1

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Sara Carioscia @saracarioscia.bsky.social · May 15

Check out this new work from my friend Arun!! ⬇️

Arun Das @arun-das.bsky.social · May 15

Our pre-print on investigating variation in South Asian genomes is now out!

Thank you to @mikeschatz.bsky.social, @rajivmccoy.bsky.social and @aabiddanda.bsky.social for all their work on this.

🧵 A thread on the key results and takeaways from our work:

bioRxiv Genomics @biorxiv-genomic.bsky.social · May 15

Assembling unmapped reads reveals hidden variation in South Asian genomes https://www.biorxiv.org/content/10.1101/2025.05.14.653340v1

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Sara Carioscia @saracarioscia.bsky.social · May 14

Biology of Genomes last week was awesome! Got some ideas in my poster session, met my online friends in real life, and saw a lot of cool new science #bog25

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Sara Carioscia @saracarioscia.bsky.social · May 9

Excited for this - visualizing pangenomes!! #bog25

Vikram Shivakumar @vikramshivakumar.bsky.social · May 9

Excited to share our latest work on comparing and visualizing multiple genome assemblies to identify conservation and structural variation in pangenomes with Mumemto! Check out poster 250 at #bog25 if you are here. New preprint coming very soon 👀

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Reposted by Sara Carioscia

Vikram Shivakumar @vikramshivakumar.bsky.social · May 9

Excited to share our latest work on comparing and visualizing multiple genome assemblies to identify conservation and structural variation in pangenomes with Mumemto! Check out poster 250 at #bog25 if you are here. New preprint coming very soon 👀

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Sara Carioscia @saracarioscia.bsky.social · May 7

If you are here at #bog25 please check out my poster (number 87) tonight! 😁 Showing our work on common variation associated with aneuploidy in human embryos

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Sara Carioscia @saracarioscia.bsky.social · Apr 30

I am FLOORED by this painting of Fig 1 from my PhD project by my labmate @smyan.bsky.social. Thank you Steph ❤️

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Sara Carioscia @saracarioscia.bsky.social · Apr 28

I had an incredible time at the Mutations in Time and Space conference last week! There were a ton of interesting talks and I so appreciate the engagement with my work. Excited for more! #MITS25

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Sara Carioscia @saracarioscia.bsky.social · Apr 26

Thank you Mike!!

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Sara Carioscia @saracarioscia.bsky.social · Apr 24

Thank you!!

Sara Carioscia @saracarioscia.bsky.social · Apr 24

Enjoyed giving my talk yesterday at Mutations in Time and Space! Excited for two more days of #MITS25

Craig Anderson @craigandersn.bsky.social · Apr 23

Sara Carioscia is next up to speak! #MITS25

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Sara Carioscia @saracarioscia.bsky.social · Apr 18

Thanks to my lab mate @aabiddanda.bsky.social for this incredible gift!! I love the @wmata.com seasonal train 🥰🌸

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Reposted by Sara Carioscia

Arjun Biddanda @aabiddanda.github.io · Apr 7

Thrilled to see this work out - its been fascinating to look at statistical genetics in these IVF embryo datasets underlying meiotic aneuploidies and recombination! Joint work led with @saracarioscia.bsky.social. See thread below, thoughts welcome!

www.medrxiv.org/content/10.1...

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Sara Carioscia @saracarioscia.bsky.social · Apr 7

My main PhD work is up! See thread below. I would love to discuss! www.medrxiv.org/content/10.1...

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Reposted by Sara Carioscia

Rajiv McCoy @rajivmccoy.bsky.social · Apr 7

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...

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Sara Carioscia @saracarioscia.bsky.social · Apr 7

Thank you for the close read and highlight @shaicarmi.bsky.social!

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