Jeffrey van Haren

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MSL10 is a high-sensitivity mechanosensor in the tactile sense of the Venus flytrap @natcomms.nature.com from Toyota lab.

www.nature.com/articles/s41...

Giotto Suite: a multiscale and technology-agnostic spatial multiomics analysis ecosystem - Nature Methods Giotto Suite provides a comprehensive, flexible and scalable platform for technology-agnostic spatial omics analysis using R.

Giotto Suite provides a comprehensive, flexible and scalable platform for technology-agnostic spatial omics analysis using R. @rndries.bsky.social

www.nature.com/articles/s41...

SCHEPHERD--the bioelectric cell herding platform built for YOU. Single cells, monolayers, organoids--this herds them all + new tricks. Plz try it-- we will *give* you parts! Teaser here of a steering a single cell. GS Yubin Lin's lifeblood with J. Yodh on piano; Celeste R. and Paul K. Thread 1/N

My group at Science has been running a big campaign to engineer new channelrhodopsins.

Excited to share the first results from it today: a suite of highly sensitive new opsins.

We call them "WAChRs".

Everyday indoor office lighting is enough to activate them pretty strongly.

E-cadherin mechanotransduction activates EGFR-ERK signaling in epithelial monolayers by inducing ADAM-mediated ligand shedding Epithelial stretching promotes the release of EGF receptor ligands that stimulate ERK activation.

A bit delayed, but excited to still share our latest paper, showing that intercellular forces transduced by E-cadherin activate EGFR-ERK signaling in epithelia by inducing EGFR ligand shedding! Mechanical and biochemical signals can act together within a single, linear cascade! tinyurl.com/mr9mj9j2

Ant reproduction is getting weirder and weirder. Here’s the latest: queens of a Mediterranean harvester ant mate with males from a different species and then lay eggs that clonally inherit those males’ genome. I.e., they lay eggs that develop into a different species. 🤯

I’ve already highlighted this landmark #lipidtime paper by @nadlerlab.bsky.social & colleagues, but ICYMI, do read André’s thread — this study is a huge leap forward in understanding the logic of intracellular lipid flux & is a phenomenal example of #chembio probes 🤝 quantitative imaging 🤝 modeling!

Nice! A song about one of my favorite fluorescent proteins! mStayGold!

Scientists Found Sticky Goo Inside a 2,500-Year-Old Jar. Seventy Years Later, They Finally Know What It Is By studying the mysterious substance's chemical makeup, scientists determined the pot was once full of honey

It's reassuring to know that letting your beverages dry out in your workplace coffee mugs and turning them into disgusting gobs of sticky goo is an ancient and time-honored practice.

www.smithsonianmag.com/smart-news/s...

Congrats!

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Fig. 4. Time-lapse FLIM analysis and hit detection Fiji macro. (A) Stitched multi-tile intensity image overlay with the fluorescence lifetime image. The lifetime image can be either average photon arrival times (‘Fast FLIM’) or calculated average lifetimes from two lifetime components. Ratiometric images can also be used. Scale bar: 1000 μm. Inset: Left – Zoom-in of lifetime image of cells after stimulation with isoproterenol; Right – Zoom-in showing cell segmentation as outlines. Scale bar: 100 μm. (B) Lifetime time traces of all 298 segmented cells in a single tile of Cos7 cells (a mix of ADRB2 KO and WT cells). Cells are stimulated with 40 nM isoproterenol (IsoP), followed by a calibration with forskolin (Forsk). Stimulation and calibration time points may be automatically calculated from the average of all traces (thick black line) or entered manually. (C) The script generates several informative visualizations. Shown are a ‘kymograph’ representation of fluorescence lifetime vs time in all cells, sorted on response magnitude (top- left); a normalized data density graph (2D histogram of lifetime vs time, with cell counts in false color), convenient when analysing thousands of cells (bottom); and (optionally animated) histograms of the fluorescence lifetimes over time (middle) and scatterplots of lifetime vs secondary parameters like cell intensity, cell area or intensity of an additional fluorescence channel of choice (top-right). (D) Hit selection dialog showing various optional criteria. These can be used separately or combined, allowing to screen for a large variety of dynamic phenotypes. (E) Based on the criteria, hit cells are determined and visualized through a ‘hits only’ lifetime traces plot (left). Blue vertical lines indicate the chosen hit detection time window. The hit cells are outlined with white lines on the lifetime-intensity overlay image (right). (F) Additional visualizations of hit cells (left) and non-hit cells (right), in density graphs, resp…

Beyond Static Screens: A High-Throughput Pooled Imaging CRISPR Platform for Dynamic Phenotype Discovery by Kees Jalink and team: www.biorxiv.org/content/10.1...

Biggest real problem Europe has is that after a certain career age, it’s Advanced or bust for many people. And there’s VERY few ERC advanced grants (way lower number than R01s). This creates a huge problem for recruitment, especially from outside, which is supposedly what they’re trying to improve.

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Cool idea that stems from integrating learnings from animal behaviorists with leading edge vaccine technology 👏

comparison table for v2 and v3

Production has started for a new #Snoutscope objective, AMS-AGY v3. It has significantly larger FOV and some other tweaks from v1 and v2. Currently accepting pre-orders. The price will need to increase modestly after deliveries start late October.

Possible End to End to End Encryption: Come Help - Bert Hubert tl;dr: The European Commission is honestly asking for experts to advise them on ways to institute “effective and lawful access to data for law enforcement”. If you are an expert, I urge you to apply t...

Attempts by law enforcement & governments to subvert end-to-end encryption are ongoing. The European Commission will spend a year thinking about their new "Roadmap for law enforcement access to data" & they are (genuinely) asking for people to join an expert group to help: berthub.eu/articles/pos...

Exclusive: Famed protein structure competition nears end as NIH grant money runs out Agency silent on funding renewal for contest that inspired creation of AIs that predicted how proteins would fold

Speak up to prevent a major loss for the field. CASP, which helped shaping structural biology including AlphaFold is on the verge of shutting down. NIH funding has lapsed, UC Davis support ends and the core team is being let go. Painfully shortsighted.

Anyone know of service providers who can do shallow shotgun sequencing for 1000s of samples at a low cost per sample? We want to use shotgun sequencing to screen 1000s of samples so we want the cost per sample to be as low as possible and do not need that much data per sample (~100 Mb or so).

Episode 8 - CellProfiler does a lot, but could it do EVEN MORE? Hop on in to let @erinweisbart.bsky.social tell you all about CellProfiler plugins - where to find them, how to use them, and how they can add the Power Of Deep Learning to your local copy of CellProfiler!

FlyBase needs our help.

Definitely worth the 5 minutes to watch. Succinct summation of what is being thrown away

Quantitative comparison of fluorescent proteins using protein nanocages in live cells, from @microtubule.bsky.social pubmed.ncbi.nlm.nih.gov/40326462/

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🚀🔬🦠 Releasing 🤖Cellpose-SAM🤖, a cellular segmentation algorithm with superhuman generalization 🦸‍♀️. Try it now on 🤗 huggingface.co/spaces/mouse...

paper: www.biorxiv.org/content/10.1...
w/ @computingnature.bsky.social 1/n

I got hit by some rather sudden and extreme financial hardship so if anyone is in need of remote wetlab contract research, strictly BSL1, do let me know. Currently scrambling for gigs.

Plant, Bacterial, Archaeal Non-model Bioeng
Custom Lab Hardware
Turn Key Genetic Design

Please repost for reach 💚

wooowww 🤩🤩

Woooww amazing!

Congrats! Amazing work! 🤩🤩