At long last... A huge collaborative effort! 🦠🧠🫀🫁🧪🧫🔬 @bihatcharite.bsky.social

Low reporting quality limits the contribution of human organ models to COVID-19 research: a systematic review

Strengthening community-driven reporting standards and methodological transparency is essential to enable robust evidence synthesis and to fully realise the potential of human organ models in future p...

thelancet.com

Excited to share our new paper! We analyzed LRP4-Ab-associated #MyastheniaGravis, revealing a distinct phenotype with a high disease burden & treatment needs. #MGStrong #MGWarrior #LivingWithMG #MyastheniaGravisNews #RareDisease #neuromuscular

New paper out in Nature Physics: we show that the embryonic epigenome forms according to universal physical rules. www.nature.com/articles/s41...

⚡️We are excited to share a new paper from the lab by @drkhole.bsky.social in @cp-cellrepmethods.bsky.social - suggesting MitoTracker dyes are not a reliable tool for detecting intercellular mitochondrial transfer❗️ www.cell.com/cell-reports...

MitoTracker transfers from astrocytes to neurons independently of mitochondria

The mitochondrial dye MitoTracker is commonly used to investigate intercellular mitochondrial transfer (IMT), particularly between astrocytes and neurons. Hole et al. compare MitoTracker with a geneti...

cell.com

Ep 25 - from our new AE/DB Bsky account! It's a great one from @erinweisbart.bsky.social - once we've done Cell Painting and gotten our data, how do we interpret the measurements into biology? She and @bethcimini.bsky.social walk you through it. PLUS, in honor of our silver episode, bonuses (1/2)

Interpreting Cell Painting Features: Classic Cell Profiler Features - AskErinDearBeth Episode 25

YouTube video by Ask Erin, Dear Beth

youtu.be

Beth Cimini 🔬💻📊@bethcimini.bsky.social · 6mo ago

Ep 24 - Understanding your thresholding options is the diff between a win and a loss in SO MANY workflows - gain that intuition, and SO MUCH is easier. The 1st of 3 episodes discussing why - inspired by OUR FIRST REAL READER QUESTION. @erinweisbart.bsky.social and I are actual advice columnists now!

🔬🧪🧠⚡Now also out as a detailed protocol. #brain glucose #metabolism #MRI #NeuroSky ⏬⏬ journals.plos.org/plosone/arti...

Measuring cerebral glucose metabolism by chemical exchange-sensitive spin-lock (CESL) MRI of 2-deoxy-D-glucose in rodents

Magnetic resonance imaging (MRI) of glucose metabolism shows significant potential for identifying disease biomarkers and monitoring therapeutic responses in neurological conditions. Here, we present ...

journals.plos.org

pm-lab@pm-lab.bsky.social · last yr.

🔬🧪🧠⚡ I am extremely happy to announce that our paper on imaging #brain glucose #metabolism using metabolic #MRI in a 🐀 rat model of ischemic stroke is now published in #JCBFM (journals.sagepub.com/doi/10.1177/...). #OpenAccess #OpenData Check the🧵 🤓 #NeuroSky ⏬⏬

There is a strange phenomenon in epigenetics where cells use energy to cycle chemical DNA modifications.Nobody knows what such oscillations are good for. We show that chromatin-mediated interactions lead to complex genomic patterns in DNA methylation oscillations.@prxlife.bsky.social bit.ly/4tBS1LJ

Spatiotemporal Patterns of Active Epigenetic Turnover

Chromatin-mediated coupling between cycles of DNA methylation and demethylation can lead to the emergence of phase-locked domains --- regions of locally synchronized turnover activity whose coarsening...

bit.ly

CellRank protocol now in @NatureProtocols! 🎉 @PhilippWeiler's detailed guide shows how to: - Integrate velocity, pseudotime & time points - Infer cell fate probabilities - Analyze lineage priming at scale Great complement to our CellRank 2 paper! 📖 www.nature.com/articles/s41...

Check out our workshop on mechanisms by which 1D and 3D processes are integrated in the genome: pks.mpg.de/neg26. I am organizing this with Buddhapriya Chakrabarti, Srinjan Basu and Angelo Rosa. #epigenetics #genomics #physics #chromatin #genomeorganization

🔬🧪🧠⚡ I am extremely happy to announce that our paper on imaging #brain glucose #metabolism using metabolic #MRI in a 🐀 rat model of ischemic stroke is now published in #JCBFM (journals.sagepub.com/doi/10.1177/...). #OpenAccess #OpenData Check the🧵 🤓 #NeuroSky ⏬⏬

"This symposium explores the power of microscopy imaging as a data-rich resource for quantifying cellular phenotypes, with a strong focus on high-content imaging techniques such as Cell Painting and their applications in drug discovery and basic cell biology" cytodata25.eu-openscreen.eu

New preprint: How do cells measure time? In human development, pluripotent epiblast cells pause for about two weeks before differentiating into more specialised cell types. We show that this timing is controlled by a transcriptional clock that works like an hourglass. www.biorxiv.org/content/10.1...

A transcriptional clock of the human pluripotency transition

Developmental timing differs strikingly between mammals. All embryonic and some placental lineages emerge from the pluripotent epiblast in a temporally defined sequence, lasting about two weeks in the...

biorxiv.org

*Please repost* @sjgreenwood.bsky.social and I just launched a new personalized feed (*please pin*) that we hope will become a "must use" for #academicsky. The feed shows posts about papers filtered by *your* follower network. It's become my default Bluesky experience bsky.app/profile/pape...

I am very pleased to have contributed to this work. Hopefully, it finds wide recognition. @fmp-berlin.de pubs.acs.org/doi/full/10....

Highly Specific Miniaturized Fluorescent Monoacylglycerol Lipase Probes Enable Translational Research

Monoacylglycerol lipase (MAGL) is the pivotal catabolic enzyme responsible for signal termination in the endocannabinoid system. Inhibition of MAGL offers unique advantages over the direct activation of cannabinoid receptors in treating cancer, metabolic disorders, and inflammatory diseases. Although specific fluorescent molecular imaging probes are commonly used for the real-time analysis of the localization and distribution of drug targets in cells, they are almost invariably composed of a linker connecting the pharmacophore with a large fluorophore. In this study, we have developed miniaturized fluorescent probes targeting MAGL by incorporating a highly fluorescent boron-dipyrromethene (BODIPY) moiety into the inhibitor structure that interacts with the MAGL active site. These miniaturized fluorescent probes exhibit favorable drug-like properties such as high solubility and permeability, picomolar potency for MAGL across various species, and high cell selectivity and specificity. A range of translational investigations were conducted, including cell-free fluorescence polarization assays, fluorescence-activated cell sorting analysis, and confocal fluorescence microscopy of live cancer cells, live primary neurons, and human-induced pluripotent stem cell-derived brain organoids. Furthermore, the application of red-shifted analogs or 18F positron emission labeling illustrated the significant versatility and adaptability of the fluorescent ligands in various experimental contexts.

pubs.acs.org

Still time to apply for this PostDoc opportunity 👇👇👇

pm-lab@pm-lab.bsky.social · 2y ago

🚨 Job Alert 🚨🔬🧪👩‍💻🖥️ Are you interested in #BioimageAnalysis #ComputerVision #AI #ML methods for the #LifeSciences? Do you want to work on #DigitalPathology of tissues, cells, organelles? Check out this #PostDoc opportunity in a collaboration with Jens Rittscher from @oxengsci.bsky.social @ox.ac.uk

The next-generation open-source "Benchtop" #mesoSPIM light-sheet microscope, with open access to everyone. Find the detailed blueprints on how to build your own, and examples of applications, from neuroscience to astrophysics! link.springer.com/article/10.1...

Benchtop mesoSPIM: a next-generation open-source light-sheet microscope for cleared samples - Nature Communications

In 2015, we launched the mesoSPIM initiative, an open-source project for making light-sheet microscopy of large cleared tissues more accessible. Meanwhile, the demand for imaging larger samples at hig...

link.springer.com

🚨 Job Alert 🚨🔬🧪👩‍💻🖥️ Are you interested in #BioimageAnalysis #ComputerVision #AI #ML methods for the #LifeSciences? Do you want to work on #DigitalPathology of tissues, cells, organelles? Check out this #PostDoc opportunity in a collaboration with Jens Rittscher from @oxengsci.bsky.social @ox.ac.uk

Research assistant / Post-doctoral fellow image analysis - Center for Stroke Research DM.16.25

full-time | 21.02.2025 | Campus Charité Mitte

karriere.charite.de

The Economist covered our "Strain on scientific publishing" paper. What is this all about? We collectively churn out more & more papers *per scientist*, an increasing pace, in a rapidly changing publication landscape. Why? How? Want to make sense of this? 🧵 www.economist.com/science-and-...

🚨🚨🚨 #Preprint Alert 🚨🚨🚨 🔬🧪🧠⚡ I am thrilled to share our recent preprint on imaging #brain glucose #metabolism using metabolic #MRI in a rat model of ischemic stroke. Great collaboration with @pboehmsturm.bsky.social @docbeardface.bsky.social and many more sadly all not on here. A brief 🧵 #NeuroSky

2-deoxy-D-glucose chemical exchange-sensitive spin-lock MRI of cerebral glucose metabolism after stroke in the rat

Rapid breakdown of cerebral glucose metabolism is a hallmark in stroke pathology. Metabolic activity delineates the penumbra from the infarct core, representing tissue that is potentially salvageable ...

doi.org

⚠️THREAD OF ALL SCIENCE-RELATED STARTER PACKS! ⚠️ 🔄Share to help people finding its topic/field - STRUCTURAL BIOLOGY Structural Biology 1: bsky.app/starter-pack... Structural Biology 2: bsky.app/starter-pack... Crystallography: bsky.app/starter-pack... Synchrotron&CryoEM: bsky.app/starter-pack...

New preprint: are deep neural networks just complicated curve fitters or can they show emergent behavior that is independent of the data? We show that training deep neural networks gives rise to emergent weight morphologies independent of the training data. arxiv.org/abs/2501.05550

Post-doc opportunity in my lab at JIC, on the Bacillus subtilis circadian clock and interactions with plants. Part of ERC Synergy programme "MicroClock", collaborating with @evolvedbiofilm.bsky.social and Martha Merrow #chronobiology @microclockerc.bsky.social www.jic.ac.uk/vacancies/po...

New #mito peeps keep joining! Don't miss out on their awesome stuff! go.bsky.app/J6Bu5fL

Juan C. Landoni@jclandoni.bsky.social · 2y ago

#StarterPack for the #Mitochondria research community! Very much a work in progress, comment below/reach out to be added! #Mito #Mitochondriac go.bsky.app/J6Bu5fL

Latest articles on cell death. Bcl-2 family proteins, death receptors, necroptosis, ferroptosis, pyroptosis, clearance of apoptotic cells, caspases and more! Apolist celldeath.wordpress.com/2024/12/23/a...

ApoList Nov-Dec 2024

Bcl-2 family proteins Inhibition of BAK-mediated apoptosis by the BH3-only protein BNIP5 – Sebastian Rühl, Zhenrui Li, Shagun Srivastava, Luigi Mari, Clifford S. Guy, Mao Yang, Tudor Moldovea…

celldeath.wordpress.com

These studies are so important. Well done to the authors and the journal for publishing it. This certainly applies to so many antibodies. Companies selling antibodies should do and provide the right controls before commercialisation. www.nature.com/articles/s41...

Why Bax detection in >1400 publications might be flawed - Cell Death & Disease

Cell Death & Disease - Why Bax detection in >1400 publications might be flawed

nature.com

Why Bax detection in >1400 publications might be flawed? The culprit: a poorly validated antibody that went unchecked for years … until recently !!!

pm-lab@pm-lab.bsky.social · 2y ago

Just stumbled on this 💎 of a paper at my end-of-the-year review of the #apoptosis #Bax #Bcl2 literature (i.e., trying to get that last paper out). Can't stress enough how glad I am that this gets reported and has a venue in a high profile journal! 🔬🧪👍👍👍 @natureportfolio.bsky.social

Why Bax detection in >1400 publications might be flawed? The culprit: a poorly validated antibody that went unchecked for years … until recently !!!

crappy anti BAX antibodies www.nature.com/articles/s41...

Why Bax detection in >1400 publications might be flawed - Cell Death & Disease

Cell Death & Disease - Why Bax detection in >1400 publications might be flawed

nature.com

Just stumbled on this 💎 of a paper at my end-of-the-year review of the #apoptosis #Bax #Bcl2 literature (i.e., trying to get that last paper out). Can't stress enough how glad I am that this gets reported and has a venue in a high profile journal! 🔬🧪👍👍👍 @natureportfolio.bsky.social

Why Bax detection in >1400 publications might be flawed - Cell Death & Disease

Cell Death & Disease - Why Bax detection in >1400 publications might be flawed

nature.com

REPORT For the last four years Austria has been measuring the online dissemination of both its open and closed publications, using the Altmetric Explorer to evaluate hundreds of thousands of items published nationally. Their report is now out, also translated into English.