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Reposted by Suja Jagannathan

eric lai @lucksmith.bsky.social · Jun 4

Hello Fly Folks. quick note FlyBase is under duress due to termination NIH$ to Harvard and intl collabs. The hardworking folks @flybase.bsky.social are doing their darndest to ensure access to current data. For US, there will soon be a new site to donate. Please spread the word, ideas and support 🪰💪

Marc Dionne @marcsdionne.bsky.social · Jun 3

My lab studies bacterial infections. We spend a lot of time looking at (or for) species-specific genetic and genomic databases for hosts and microbes. FlyBase is the best of all—there is literally no comparison. Its existence is under threat. Please donate.
www.philanthropy.cam.ac.uk/give-to-camb...

Drosophila Genetic Database

The Drosophila Genetic Database, FlyBase, is on the brink of collapse due to the sudden termination of the FlyBase NIH grant, which includes salaries for 5 literature curators based at the University ...

www.philanthropy.cam.ac.uk

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Suja Jagannathan @rnabiologist.bsky.social · May 28

I will unfortunately miss the meeting this year. 😞 So much FOMO! Have fun on my behalf!

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Suja Jagannathan @rnabiologist.bsky.social · May 21

This preprint is now out after peer review! Check it out: www.cell.com/cell-genomic.... Huge congrats (and thanks!) to the whole team that contributed!

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Suja Jagannathan @rnabiologist.bsky.social · Mar 25

Absolutely!

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Suja Jagannathan @rnabiologist.bsky.social · Mar 25

Excited to have this out as a preprint!

It was a pleasure to work with @calhoujd.bsky.social and all the coauthors brought together by @varianteffect.bsky.social.

Jeff Calhoun @calhoujd.bsky.social · Mar 25

Excited to share our @varianteffect.bsky.social CVI workstream preprint! Herein, we discuss important considerations for integration of multiplex functional data to generate a single score set and how this is likely to impact variant classification now and in the future

arxiv.org/abs/2503.18810

Combining multiplexed functional data to improve variant classification

With the surge in the number of variants of uncertain significance (VUS) reported in ClinVar in recent years, there is an imperative to resolve VUS at scale. Multiplexed assays of variant effect (MAVE...

arxiv.org

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Reposted by Suja Jagannathan

Daniel MacArthur @dgmacarthur.bsky.social · Mar 15

New preprint! We worked with @msftresearch.bsky.social and @broadinstitute.org to see whether large language models (LLMs) can be useful to variant scientists in deciding whether genetic variants seen in a patient are responsible for their disease. tl;dr yes they can: www.biorxiv.org/content/10.1...

Evidence Aggregator: AI reasoning applied to rare disease diagnostics

Retrieving, reviewing, and synthesizing technical information can be time-consuming and challenging, particularly when requiring specialized expertise, as is the case of variant assessment for rare di...

www.biorxiv.org

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Suja Jagannathan @rnabiologist.bsky.social · Mar 1

Wish i could claim credit! 😂

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Reposted by Suja Jagannathan

Jeremy Berg @jeremymberg.bsky.social · Feb 15

ATTENTION (PLEASE SHARE)

If anyone has or knows of any positions that might be appropriate for the NIH staff members who were terminated, please post the information in this thread.

There are lots of talented and accomplished people who may be looking for new opportunities.

a poster that says if life gives you lemon make lemonade on it

ALT: a poster that says if life gives you lemon make lemonade on it

media.tenor.com

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Reposted by Suja Jagannathan

Olga Anczukow @olgaanczukow.bsky.social · Feb 16

Our latest work on targeting the poison exon in #RNA #splicing factor TRA2B in #cancer reveals a role for this non coding transcript and opportunities for targeting splicing factor levels across multiple tumor types
rdcu.be/d90Ra
#RNAsky @jacksonlab.bsky.social

Antisense oligonucleotide-mediated TRA2β poison exon inclusion induces the expression of a lncRNA with anti-tumor effects

Nature Communications - The oncogenic splicing factor TRA2β is reported to be upregulated in human cancers partly by increased TRA2β poison exon (PE) skipping. Here the authors show that...

rdcu.be

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Reposted by Suja Jagannathan

Harmit Singh Malik @harmitmalik.bsky.social · Jan 28

If you have been affected by the fires in LA, or are concerned about your ability to keep precious Drosophila strains going during the latest funding crisis, we will host your strains as a backup. Please email me.

Please amplify. If you are also able to host fly strains, add your name as well.

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Reposted by Suja Jagannathan

Jacki Heraud-Farlow @jackiheraudfarlow.bsky.social · Dec 6

Time for a 🧵 on our new paper from the Walkley lab in @scienceimmuno.bsky.social.

If you're into RNA editing by ADARs, double-stranded RNA (dsRNA) sensing, post-transcriptional gene regulation and CRISPR screening, then read on! 1/X

www.science.org/doi/10.1126/...

#RNASky #ImmunoSky

GGNBP2 regulates MDA5 sensing triggered by self double-stranded RNA following loss of ADAR1 editing

GGNBP2, CNOT10, and CNOT11 are required for innate immune response after the loss of ADAR1-mediated editing of self dsRNA.

www.science.org

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Reposted by Suja Jagannathan

Nils Blüthgen @molsysbio.bsky.social · Nov 21

How long does an mRNA stay in the nucleus? How long does it stay in the cytoplasm? In an amazing collaboration with @landthalerm.bsky.social, we used metabolic labeling, cell fractionation and mathematical modeling to quantify mRNA flow through the cell. Finally out in MSB: doi.org/10.1038/s443...

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Reposted by Suja Jagannathan

Anne Oeldorf-Hirsch @anneo.bsky.social · Nov 27

Question for FULL Professors:

I'm preparing myself to go up for Full soon, and I'm just curious to hear from additional voices: What changed for you as Full? Did it open up any additional opportunities? What new/different expectations came with it?

#AcademicSky #CommSky

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Reposted by Suja Jagannathan

Leo Schärfen @leoschaerfen.bsky.social · Nov 27

I'm excited to share the preprint for the first chunk of my PhD work! We combined DMS structure probing with nascent RNA enrichment to report high-resolution, dynamic structures of transcripts just after synthesis - inside cells. @karlaneugebauer.bsky.social
www.biorxiv.org/content/10.1...

Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis

An RNA′s catalytic, regulatory, or coding potential depends on RNA structure formation. Because base pairing occurs during transcription, early structural states can govern RNA processing events and d...

www.biorxiv.org

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Reposted by Suja Jagannathan

Heidi Rehm @heidirehm.bsky.social · Nov 22

I know many of you have been awaiting us launching transcript expression data in gnomAD. We were waiting for the GTEx v10 release which is now out so we are finally able to launch this. Enjoy!!

Genome Aggregation Database (gnomAD) @gnomad-project.bsky.social · Nov 22

Proportion expressed across transcripts (pext), using GTEx v10, is now available on #gnomAD v4!

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Reposted by Suja Jagannathan

Monica Pomaville @pomavillem.bsky.social · Nov 22

Interesting role of m6A in the coding sequence of RNA

www.cell.com/molecular-ce...

m6A sites in the coding region trigger translation-dependent mRNA decay

Zhou et al. discovered a specific role of adenosine modifications in the coding region of mRNAs. These chemical alterations slow down the movement of the ribosome during translation and trigger degrad...

www.cell.com

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Suja Jagannathan @rnabiologist.bsky.social · Nov 11

Thanks for the shoutout, Megan!

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Suja Jagannathan @rnabiologist.bsky.social · Jan 24

Excited to share the latest work from the lab, led by Divya Kolakada, the first PhD from our group 🎓🤓🎉

Peptidyl-tRNA hydrolysis rate influences the efficiency of nonsense-mediated mRNA decay www.biorxiv.org/content/10.1...

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Reposted by Suja Jagannathan

Edward Wallace @ewjwallace.bsky.social · Oct 17

Created an #RNAbiology feed to talk RNA science! Let's use it.

@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social

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