iiinova — where your digital self keeps evolving

Danielle Swaney @dlswaney.bsky.social · 19/08/2026

We recently got reviews back on a manuscript where 2 of 3 were most likely AI generated. It made me very sad for the future of reviews, which are going to give people a false sense of expertise and likely be even more petty than before.

130

Reposted by Danielle Swaney

Tesorai @tesorai.bsky.social · 14/07/2026

The biology was always there. Better computational methods made it possible to find. In collaboration with UCSF, Tesorai identified 7,998 protein-verified RNA editing sites—an 18× increase over previous reports. Congrats @dlswaney.bsky.social, @petercim.bsky.social, and colleagues!

034

Danielle Swaney @dlswaney.bsky.social · 17/12/2025

Did you know 🦑 squids dynamically re-write proteins via RNA-editing? Like A LOT! In work led by Jack Moen, we show this reshape protein stability, localization, PTMs, etc.; revealing how RNA-editing dramatically expands protein diversity to tune function in unexpected ways. doi.org/10.64898/202...

doi.org

Functional diversification of the cephalopod proteome by RNA-editing

Coleoid cephalopods exhibit the highest levels of ADAR-mediated RNA editing of any known animal, yet the functional consequences of most recoding events remain largely unknown. We integrate proteomics...

030

Danielle Swaney @dlswaney.bsky.social · 18/09/2025

If anyone was curious. We succeeded, but it wasn’t easy. Reviewers were insistent on western blots. Eventually we convinced the editors otherwise using peptide level quant info to show decent sequence coverage and a biochemical/biophysical rational for why not all the peptides had the same quant.

191

Danielle Swaney @dlswaney.bsky.social · 07/06/2025

I have been thinking about this question too. Part of me was worried that doing this would damage the entire system in a way that will be used against scientists to justify further reductions.

011

Danielle Swaney @dlswaney.bsky.social · 21/05/2025

Welcome to the club 😔. You’ve got a big voice. Hopefully you can continue to advocate strongly for science—particularly with your local representatives and community members where changed minds can have a meaningful impact.

020

Danielle Swaney @dlswaney.bsky.social · 14/05/2025

I hear you. If this was a well-studied protein with a rock-solid antibody I might consider it. But it’s not. Also, it’s an antiquated double standard to “validate” more specific and quantitative proteomics data with an inferior western blot assay. I would bet the opposite request is far more rare.

020

Danielle Swaney @dlswaney.bsky.social · 14/05/2025

How are people handling the “validate your protein change by western blot” reviewer request? We already have proteomics data showing protein KD, qPCR showing transcript KD, and a dramatic functional response. I am leaning towards holding my ground not to do western. It is just redundant busy work

15120

Danielle Swaney @dlswaney.bsky.social · 04/03/2025

Usually it’s one 10cm or 15cm dish of cells. But this is way more than needed, since we only inject ~5% of the sample after IP.

010

Danielle Swaney @dlswaney.bsky.social · 27/02/2025

👏 Philly was a great host city. Women-friendly state laws, easy train ride from the airport to the city, and most of all the people of the city were so nice and helpful. 10/10 would go again.

040

Danielle Swaney @dlswaney.bsky.social · 15/12/2024

Thanks for the shoutout on our paper. It was a difficult process of methods optimization over several years to get this to work well and provide biologically meaningful results.

010