Finally out in NAR ! 🥳Meet ECSFinder, and ML tool that identifies the most informative conservation/covariation features for RNA structure and benchmarks well on hTERC. Grateful to @martinalexsmith @sauvagem1 & John Mattick for their contributions. – at Montréal, Québec
RNA is far more than a messenger.
Its structures regulate, evolve, and catalyze — carrying out functions DNA and proteins cannot alone.
But predicting #RNA structure from sequence is still extremely difficult.
In our latest NAR paper, we present a way forward.
🧵 ⤵️
Vanda G-Lovejoy retweeted
This eventuated with ECSfinder, a pipeline that can be used to detect evolutionarily conserved 2D structures (ECS) with greater accuracy than individual tools. All work led by PhD candidate @non_coding_gal with significant contributions from @sauvagem1 and John Mattick (10/10)
Vanda G-Lovejoy retweeted
The great thing about interpretable ML is that you can look at feature importance in the resulting classifier, which exposed some interesting findings. Notably, minimum free energy is somewhat important! (9/)
Vanda G-Lovejoy retweeted
Do long non-coding RNAs form conserved, functional secondary structures?🧬䷰𐂷 How can we systematically assess this?
We compared 2 tools fit for this task (SISSIz & R-scape) across 2 genomic benchmarking strategies.
Spoiler: machine learning wins (🧵/10)
biorxiv.org/content/10.1101/…
Vanda G-Lovejoy retweeted
False eyelashes are incredibly popular but can I just say as an ophthalmologist, they look horrifying under 10x magnification. The lashes are so densely packed that they trap all the dead skin cells, dirt, and oily secretions from your eyelids. It’s a sebaceous swamp in there and frequently results in red, itchy, swollen, irritated eyelids.
Vanda G-Lovejoy retweeted
I'm glad to share our most recent article with @LovejoyShaun in the @PaleoSoc journal "Paleobiology" presenting so called Fractional MacroEvolution Model (FMEM), which reflects key features of macroevolution - scaling and long memory
doi.org/10.1017/pab.2023.38
1/n
Vanda G-Lovejoy retweeted
Trimming the abstract to 150 words
xitter.cf/videospvcagado/status/…
Last day in Lorne today 🥲What a wonderful conference @GenomeConf was. Great weather, fascinating talks and wonderful people 🥰. – at Lorne, Victoria
Vanda G-Lovejoy retweeted
Second poster (#149) from @therealsmithlab tonight at #LorneGenome @GenomeConf by @BiologistQuirky: A comparative benchmarking of conserved RNA secondary structure prediction tools for the systematic annotation of non-coding RNAs. Ask Vanda about R-scape, SISSIz & lncRNAs
Vanda G-Lovejoy retweeted
Voici la nouvelle équipe qui compose désormais l'Aébinum. De droite à gauche, nous avons Cécile Poulain, Simon Paquette,Thomas Renne, vice-président secrétaire, Alexis Nolin-Lapalme, David Hamelin, président, Sam Pedro, Léa Kaufmann, Vanda Gaonac'h-Lovejoy et Sayeh Kazem 🎉 – at Montréal, Québec
Great demo today with @SupportOurSci. We demand a living wage, more scholarships and grants for science. – at Montréal, Québec
