A clear/significant finding derived from the single cell (sc) analysis of biological systems has been the realization that phenotypically homogeneous populations are heterogeneous at the level of gene expression (GE). www.cell.com/fulltext/S00... 🧵

Nature, Nurture, or Chance: Stochastic Gene Expression and Its Consequences

Gene expression is a fundamentally stochastic process, with randomness in transcription and translation leading to cell-to-cell variations in mRNA and protein levels. This variation appears in organis...

cell.com

@lsprahl.bsky.social and Ronald Canlla in the lab just published a detailed study on remote-controlled epithelial budding morphogenesis. We can direct budding, tubule elongation, and perhaps branching in human kidney organoids via a light-activated RET receptor. www.biorxiv.org/content/10.6...

One of my very favorite papers from the lab! Shows that individual cells can learn by forming memories. Amazing work by Jess Li!

Waggoner Lab@labwaggoner.bsky.social · 5mo ago

AP-1 mediates cellular adaptation and memory formation @natcomms.nature.com @pennmedicine.bsky.social @arjunraj.bsky.social @penngenetics.bsky.social www.nature.com/articles/s41...

How can cells use information from neighboring cells to improve the spatial precision of morphogen patterns? 🤔 We show that cells can gain positional information by "talking" to their neighbors - how much depends critically on spatial correlations of the patterns. buff.ly/w56OUJT

We designed SpaceBar to be as easy to use as possible: Cells are labeled via lentivirus transduction, and barcode detection works with any standard imaging-based spatial transcriptomics workflow. w/ Yael Heyman and @arjunraj.bsky.social Check out the thread from the preprint for more info!

Grant Kinsler@grantkinsler.bsky.social · last yr.

Excited to share SpaceBar - our new method for labeling and detecting clones with imaging-based spatial transcriptomics platforms! w/ Yael Heyman and @arjunraj.bsky.social www.biorxiv.org/content/10.1... 🧵

See this? This = implanting mouse embryo. Usually this happens inside its mother and is invisible to us, but we can actually watch implantation ex vivo with the hope of understanding why implantation goes awry in embryos of older women. A 🧵...

In this intriguing paper published from the lab of @amartinezarias.bsky.social , they looked at the effects of size on morphology, tissue composition, and gene expression of gastruloid development. They found that AP elongation dynamics is size-dependent! Check it out here: doi.org/10.1016/j.cd...

Aria Huang's @azyhuang.bsky.social paper is out on beautiful embryonic kidney 3D cultures that branch properly and enable live defect analysis. She also finds intriguing effects of adhesion and stiffness on explant size, shape, and nephron formation - boundary conditions matter! rdcu.be/eBSUK

[0/8] Stoked to share our work with @arjunraj.bsky.social on tissue organization in the gastruloid. We use lineage tracing and spatial transcriptomics to show that diversity among stem cell clones promotes, rather than hinders, gastruloid development: www.biorxiv.org/content/10.1...

Gastruloid patterning reflects division of labor among biased stem cell clones

Embryonic development typically requires precise coordination among cells to achieve reproducible outcomes, leading to the assumption that cellular heterogeneity must be minimized or buffered against....

biorxiv.org

Excellent work indeed, but I feel in this context @adrianobolondi.bsky.social fantastic work should also be mentioned www.cell.com/developmenta...

Reconstructing axial progenitor field dynamics in mouse stem cell-derived embryoids

Bolondi, Law, et al. engineer a single-cell recorder to reconstruct progenitor dynamics within mouse stem cell-derived embryoids. They characterize the variable fates of axial progenitors as they cont...

cell.com

Alfonso Martinez Arias@amartinezarias.bsky.social · last yr.

Two new preprints from the @arjunraj.bsky.social‬ on #gastruloids. Both excellent. Exploring the relationship between macroscopic reproducibility v microscopic heterogeneity. Stunning experiments and much to think about biorxiv.org/content/earl... biorxiv.org/content/earl...

Two new preprints from the @arjunraj.bsky.social‬ on #gastruloids. Both excellent. Exploring the relationship between macroscopic reproducibility v microscopic heterogeneity. Stunning experiments and much to think about biorxiv.org/content/earl... biorxiv.org/content/earl...