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Why and how do tissues far from wounds respond during regeneration? Our study of planarian flatworms suggests the special morphology of longitudinal body-wall muscles helps to rapidly propagate wound signals throughout the body for licensing regeneration. sciencedirect.com/science/articl…

Happy to share the preprint of our work that has been my PhD project! We hope you all, and specially macrophage lovers, find it interesting and welcome any suggestions and constructive comments! biorxiv.org/content/10.110…

Congratulations Sonal Joshi! So proud of you 🥂

How to trace developmental potential on an absolute scale from single cell expression data? We are thrilled to announce that CytoTRACE 2 is out on bioRxiv! Aaron Newman Lab github.com/digitalcytomet… doi.org/10.1101/2024.0…

My first postdoc paper is live. This was a very fun project to work on, and the end result....GLOWING SEA URCHINS. Details below for how we made the first stable transgenic sea urchin. Amro Hamdoun Evan Tjeerdema 🐚 Svenja Kling Yoon Lee, Emilio Romero biorxiv.org/content/10.110…

Meet the amazing acoel! Getting cut in half is no problem for this marine flatworm—within minutes, its wound seals up. In a couple days, it’ll have a whole new tail. Discover more about their surprising regenerative abilities in #DeepLook’s new video: bit.ly/AcoelsYT

Super excited to share my PhD work and my 1st first author publication! We have some exciting observations about how macrophages change during tumour progression, whether they can cross-present tumour antigens and how Tim4 participates in it!

Hello folks. Did anyone transfer from F1 OPT to J1 visa while staying in the US? Asking for a friend.

Imaging the entire course of tissue regeneration requires transparent animals, efficient transgenesis & microscopes that can image free-behaving animals. Here we present a toolkit and reveal dynamic cellular processes during regeneration of Macrostomum. biorxiv.org/content/10.110…

Coordinated wound responses in a regenerative animal-algal holobiont | Nature Communications nature.com/articles/s4146…

In flatworms, Neoblasts are the only dividing cells outside the reproductive system... REALLY? In collaboration with BoWangLab, we show that things are not so simple. Here's our preprint on the intriguing stem cell system of the Catenulid Stenostomum biorxiv.org/cgi/content/sh…

We propose ctQC(tinyurl.com/4j6scp2r), a data-driven method to filter low-quality cells from scRNA & spatial omics data! Apart from empty droplets it efficiently eliminates soup/debris & damaged cells improving downstream biological inferences. Comments & suggestions welcome!

Stanford University did a story on @Eliott_Flaum and my adventures on unraveling a mystery that bothered us for a long time. Inspired by “recreational mathematics” - hoping we can establish “recreational biology” - living curiosities explored for its own right. news.stanford.edu/stories/2024/0…

Our new bioRxiv! The Hydractinia Cell Atlas. Neither the hermit crab, nor the dead mollusc that once occupied the shell, but the colonial cnidarian growing on top. Can we learn more about how this association evolved using single-cell analysis? 🧵👇 biorxiv.org/content/10.110…

Planarians never cease to surprise - we show that epidermal cells undergo basal extrusion and a 'death march' to be digested by gut phagocytes. Thus, self-digestion is not only part of pathological cell clearance, but also of steady-state tissue turnover. How? Lots to discover :)

Excited to share our work on live imaging of the entire course of body regeneration in the marine flatworm Macrostomum using transgenics & advanced microscopy. We hope these tools can unlock the unique biology of this fascinating intertidal animal. cell.com/cell-reports/f…

Cell types can be grouped into families. What sets them apart? Our scATACseq/ML proposes cell type-specific genome access diversifies through non-conserved combinations of sequence motifs drawn from 'motif vocabularies' conserved for individual families. biorxiv.org/content/10.110…

How do organelles fit together inside a crowded cell? Answering this question requires a way to image many organelles in a whole cell at high resolution with high throughput. Our new preprint shows how to do this in yeast using soft x-ray tomography biorxiv.org/content/10.110…

Where does pattern come from inside cells? in this revised preprint, @aralbright.bsky.social shows that regionalization of mRNA in a Stentor cell depends on dynein motors and the microtubule cytoskeleton doi.org/10.1101/2023.0…