The Smith Laboratory

Omics research at the intersection of molecular and computational sciences, led by @MartinAlexSmith @UNSWBABS leveraging all the hardware from @ramacgenomics

[Martin Smith @martinalexsmith]

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.
🧵 ⤵️

[The Smith Laboratory @TheRealSmithLab]

Latest work from the lab: Genomic benchmarking strategies combined with interpretable machine learning reveal features that are important for improving #RNA structure prediction performance

[Martin Smith @martinalexsmith]

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)
https://t.co/fCxZEoI2r1

[The Smith Laboratory @TheRealSmithLab]

Congratulations to Anshul and Niña for passing their 'predoc' general PhD exams 🎇🌟

[The Smith Laboratory @TheRealSmithLab]

.@martinalexsmith was awarded the best talk for the Translational Award category at the #Zero Childhood Cancer National Symposium last May @KidsCancerInst

[Martin Smith @martinalexsmith]

I'm recruiting a Postdoctoral Fellow for a 3-year academic level A appointment ($106K - $113K plus 17% superannuation and annual leave loading) to lead research projects in genomics & computational biology in stunning Sydney (🧵⬇️)
https://t.co/xHT9ko4hwu

[The Smith Laboratory @TheRealSmithLab]

@Steffen_E_Fuchs @martinalexsmith @GenomeConf @BiologistQuirky This project doesn't directly interrogate circRNAs. However, they might overlap structural motifs predicted to be conserved, which could help annotate and/or classify circRNAs

[Martin Smith @martinalexsmith]

Come say hi if you're at #LorneGenome @GenomeConf, poster #234. Ask me about nanopore direct RNA sequencing, long non-coding RNA function and pediatric leukemias.

[Martin Smith @martinalexsmith]

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

[Martin Smith @martinalexsmith]

Tonight at #LorneGenome @GenomeConf Poster 116, @AnshulStudiosus from @therealsmithlab:
Improving single cell transcriptomics with long reads. Ask Anshul about nanopore RNA-seq #bioinformatics benchmarking & discovery of cell-type specific lncRNAs

[The Smith Laboratory @TheRealSmithLab]

50% of the SmithLab is attending @LorneCancer & @GenomeConf
Come say hi to @martinalexsmith @AnshulStudiosus & @BiologistQuirky

[The Smith Laboratory @TheRealSmithLab]

Behold, a new era for transcriptomics has begun

[Libby Snell @Libby_Snell_]

Very happy this is going out in Open Early Access!! It's been a labor of love for many involved! #RNA004 - higher accuracy & output, w/ more to come with the big RNA dorado release (v0.4.3) https://t.co/TYslz4HYGy. Mods, tails & more! See below for more info! @nanopore #directRNA

[The Smith Laboratory @TheRealSmithLab]

We will be soon be hiring a postdoctoral research officer (Level A) in Sydney to work on developing new applications for single-cell, single-molecule transcriptomics. Stay tuned.

[The Smith Laboratory @TheRealSmithLab]

We have received funding from @IVADO_Qc & @GenomeQuebec in collaboration with Dr Michael Chassé's team at @CRCHUM to explore the potential of real-time transcriptomic profiling in intensive care.
https://t.co/uob3sHm4Kq

[The Smith Laboratory @TheRealSmithLab]

Nicholas Geoffrion has joined https://t.co/sHyYmz9h79 @nanopore_ca to provide software engineering, data analysis and computational infrastructure support. He has lengthy experience integrating software solutions for genomics laboratories.

[The Smith Laboratory @TheRealSmithLab]

All @nanopore_ca services are maintained and will be managed through @CR_CHUSJ via a new Integrative Genomics platform, joining forces with experts from the single-cell sequencing core facility.

[The Smith Laboratory @TheRealSmithLab]

After over two years smashing out nanopore libraries and doing great research, @bulking_neuron has left the lab to join @nanopore as an Account Executive for Québec, Eastern Ontario and the Maritimes. Thanks for everything Bastien and we look forward to future collaboration 🧬

[The Smith Laboratory @TheRealSmithLab]

Lots of updates from us. Mainly:

[The Smith Laboratory @TheRealSmithLab]

Happy Halloween 👻🎃
Wubba lubba dub dub

[The Smith Laboratory @TheRealSmithLab]

On recrute! Si vous connaissez quelqu'un qui serait possiblement intéressé de contribuer à l'implémentation de la génomique 🧬💻 unimoléculaire au Canada, 👇
https://t.co/1mvsKHnw2E

[The Smith Laboratory @TheRealSmithLab]

#SmithLab #Summer