New @biorxivpreprint.bsky.social preprint led by @pranujanp.bsky.social, studying errors such as incorrect primer sequences and contaminated #CellLines in #circRNA papers in high impact factor journals. We found reagent errors in 51% of n=118 circRNA papers in high IF journals in 2022 (1/4)🧪
Check out the python package and documentation:
github.com/rajewsky-lab...
rajewsky-lab.github.io/pytrance/
Whats most exciting: In a Xenium mouse brain dataset we predicted four GABAergic markers (Gad1, Gad2, Hapln1, Kcnmb2) to co-localize in neuronal projections. Experimental validation confirmed our predictions.
(Col19a1 is used as negative control bellow)
Really proud to have contributed to this collaboration 🧠✨
Check out! @lstrngr.bsky.social cool new tool!
Thank you to @dailyneuron.bsky.social for this nice piece about our work on Cdr1as and RNA networks in the brain. dailyneuron.com/circular-rna...
🚨 Our new review is out!
What makes a circular RNA actually functional?
We revisit Cdr1as/ciRS-7, one of the most studied circular RNAs, and bring together 15+ years of work to understand what makes it functionally unique.
Check it out here 👇 www.nature.com/articles/s41...
🚨In our new preprint we show that miRNAs act within a precise temporal window to control cell fate decisions in the human forebrain. 🧠
A study of miRNA expression dynamics and functions during early human brain development. @mdc-bimsb.bsky.social
Check it out! www.biorxiv.org/content/10.6...
"we propose that the protoribosome was a parasite (...). If this view is correct, then like the spliceosome in the stem eukaryote, a repurposed host-parasite interaction led to a dramatic change in cell biology at the base of the tree of life, in this case leading to the exit from an RNA world"
Evidence suggests that transcriptionally similar cells can be functionally diverse
go.nature.com/3N4lT2d
www.biorxiv.org
Contribute to rajewsky-lab/pytrance development by creating an account on GitHub.
github.com
Inside every mammal brain sits a small ring of genetic code biologists called junk for forty years. They were wrong about what it does.
In this paper, the authors review how the circular RNA Cdr1as and its interacting non-coding RNAs regulate neuronal stress responses and synaptic activity, highlighting general principles of RNA-based...
www.nature.com
MicroRNAs (miRNAs) are key post-transcriptional regulators of cell state transitions, yet their function in early human brain development is largely unknown. Here, we present a longitudinal analysis of miRNA function in developing human forebrain organoids. We show that mRNAs and miRNAs expression mirrors known developmental gene programs and that miRNA biogenesis peaks at neural commitment. To test the function of miRNAs in regulating commitment, we impaired their biogenesis at defined stages. miRNA disruption during pre-neuronal commitment caused severe patterning defects, whereas post-commitment perturbation had minimal impact on forebrain identity. We show that miRNA loss during pre-commitment increased WNT and BMP signaling, thus shifting cell fates towards non-forebrain identity such as midbrain/hindbrain. These effects could be partially rescued by expressing five miRNAs. Our findings uncover a critical time window where miRNAs regulate morphogen signaling in early human neurodevelopment, establishing them as essential temporal determinants of cell fate and brain regional identity. ### Competing Interest Statement The authors have declared no competing interest.
www.biorxiv.org
Abstract. The origin of life is one of the great mysteries of science. Of the multiple unsolved problems, the origin of the translation system (the means b
New paper! How do RNAs "know" where to go inside a cell? We dug into the sequence elements that route RNAs to the right place. It turns out that, in mammals, they're surprisingly massive (>200 nt), multipartite, and wonderfully complicated. 🧵