Our paper on inferring Wnt signals just got published with PRR! doi.org/10.1103/f7qj...
 We use ideas from efficient coding to infer the best possible set of Wnt signals for cells to respond to: these signals are discrete, and do not need to be fine-tuned. (1/n)

In a really fun collaboration with Max Wilson’s lab at UCSB, we’ve developed a simple model that can capture the non-monotonic expression of Wnt target genes with respect to frequency in periodic (optogenetic) Wnt pulses: elifesciences.org/articles/107.... Great work Sam, Olivier, Naomi and Ryan :)

Anti-resonance in developmental signaling regulates cell fate decisions

Human cells decode dynamics Wnt signals using an anti-resonant filter that suppresses intermediate-frequency inputs and is capable of redirecting developmental fate outcomes, including germ-layer spec...

elifesciences.org

The first paper from my group just got published: doi.org/10.1103/cx3r... Local clustering of transcription factors at binding sites can be beneficial for information transfer -- a relief for taking infomax ideas seriously :) And it helps the binding sites achieve a sweet spot in the IB plane.

Weak Transcription Factor Clustering at Binding Sites can Facilitate Information Transfer from Molecular Signals

By analyzing bicoid regulation in the fruit fly embryo, this study shows that weak clustering of transcription factors can enable maximal transfer of information from molecular signals to downstream g...

doi.org

Impressive paper from the Tanenbaum lab - high-resolution imaging on individual and small numbers of ribosomes on socRNAs to see how ribosomes move.

Marvin Tanenbaum@marvintanenbaum.bsky.social · 2y ago

Our paper on Stopless-ORF Circular RNAs (socRNAs) is now out in Cell. By high-res tracking and comparing translation by either single or multiple ribosomes, we find that ribosomes cooperate to overcome pausing to ensure fast and efficient translation www.cell.com/cell/fulltex...