Excited to share our #preprint showing that #macrophages in the regenerating #zebrafish #heart are shaped by local cardiac-immune microniches, with a fibroblast-to-macrophage signal promoting regeneration over fibrotic repair www.biorxiv.org/content/10.6...
@idrm.ox.ac.uk @oxforddpag.bsky.social
We’re hiring a postdoc!
If you’re interested in single-cell/spatial genomics, regulatory genomics, deep learning, or AAV engineering, join is @ki.se in Stockholm to help develop smarter CNS therapies: ki.varbi.com/en/what:job/jo… @erc.europa.eu
Thanks Dinos!
This was spearheaded by brilliant postdoc
@margheritazamboni.bsky.social with contributions from Adrian Martinez, Gabriel Rydholm, Timm Häneke, Laura Pintado, Deniz Secilmis and Chris Ziegenhain. Huge thanks to our funders SSF, VR, ERC @ki.se among others!
We're now really excited about having easy genetic access to reactive astrocytes and other cell states and even more to further exploit the precision with which we can now program gene expression in them! We're hiring at multiple levels (postdocs,...) so reach out if this sounds interesting!
Finally, we used enhancer AAVs to systematically test the DL model predictions in a candidate enhancer, validating the modular configuration to simultaneously encode injury-responsiveness and cell type specificity
We next used an AAV-based parallel reporter assay to screen reactive astrocyte enhancers using a single cell readout. With this we identified enhancers that selectively targeted reactive astrocytes in the injured brain and spinal cord even when systemically delivered pre-injury
we found that AP1 motifs in IRENs were in close proximity to motifs for cell identity TFs, and those were different for each cell type. Thus, instead of cell type specific TF induction, a modular 'AP1+lineage TF' architecture drives most enhancer activation after injury.
While these were more common in astrocytes and ependymal cells, all glial cells used AP1 factors to comission injury induced enhancers (IRENs). But how were different enhancers selected in different cells then? Training ChromBPNet seq-2-accessibility DL models on resting vs reactive cell states...
while developing tools for cell state targeting. Using single cell multiomics @10xgenomics.bsky.social in the injured mouse spinal cord, we find thousands of enhancers with highly specific patterns of activity, tracking transient cell states across multiple glial lineages.
We are beginning to understand the code for cell type specific gene regulation. In parallel, atlasing efforts are mapping disease associated cell states. Comparatively, we know much less about the gene regulation of disease associated states, and we aimed to fill that gap...
First paper from the lab is now online
@natneuro.nature.com !
We mapped injury induced enhancers in the mouse CNS and decoded their sequence architecture. Little 🧵 rdcu.be/eSQi1
Thanks Shane!!
A major KI initiative to recruit new assistant professors with outstanding proposals in all areas of medicine, biomedicine and public health. We offer an amazing research environment, great colleagues and generous startup packages. Check it out and get working on your applications! (repost please!)
🧪 Job alert 🔊 we are hiring a Research Assistant - join the Simões Group at DPAG-IDRM @ox.ac.uk supporting #cardiovascular development and regeneration research, working with #zebrafish and #human stem cell systems: my.corehr.com/pls/uoxrecru... @oxforddpag.bsky.social @idrm.ox.ac.uk (1/4)
Are you an established (”distinguished”) researcher outside Europe? Thinking of moving here for some reason? Grant opportunity just dropped: www.vr.se/english/appl...
Join us @ki.se in Stockholm to work on spatial genomics. A few days left to apply to the open postdoc position in our lab 👇
NEW 🧵 Is human intelligence starting to decline?
Recent results from major international tests show that the average person’s capacity to process information, use reasoning and solve novel problems has been falling since around the mid 2010s
What should we make of this?
www.ft.com/content/a801...
📢 We're hiring! Postdoc position available at our lab at the Karolinska Institute in beautiful Stockholm to work on exciting projects developing and applying spatial genomics.
Apply here: ki.varbi.com/what:job/job...
Email or dm to discuss
@ki.se #PostdocPosition #Spatial #Stockholm #ScienceJobs
It's time for individuals and organizations in Europe and other democratic countries to move mission- or life-critical IT services and infrastructure outside the reach of the US government; noting that US tech companies have already largely subordinated themselves.
www.huber.embl.de/group/posts/...
"We’re witnessing the self-sabotage of the United States"
from @davidfrum.bsky.social
www.theatlantic.com/politics/arc...
A #Pleurodeles on the cover. Interested in this #giantgenome, #salamander #regeneration, #noncodingRNA landscape? Pls check out: www.cell.com/cell-genomic.... Many great labs involved, special thanks to co-senior authors
@maxyunlab.bsky.social, and @niche-leigh.bsky.social
A clam with a spring attached to the shell. The spring has a magnet placed above a sensor.
Hardly new info, but BSky should know:
Warsaw's water quality is monitored by eight clams with magnets attached to their shells. If contamination in the water causes the clams to close, the magnets trigger an alarm and shut off the city's water supply.
Thank you, little guardian molluscs.
🧪🌏🚰
A portrait of Daisy Roulland-Dussoix from Wikipedia: https://en.wikipedia.org/wiki/Daisy_Roulland-Dussoix
Do you know Daisy Roulland-Dussoix? She is one of the discoverers of restriction enzymes, who’s findings paved the way for the development of recombinant DNA and cloning technologies. Accordingly, the finding was rewarded with a #NobelPrize. But the prize didn’t go to her.
🧵👇
1. A thread about the value of doing "slow science": When I was in grad school I heard this (likely apocryphal) story about one of my favourite scientists: Barbara McClintock.
Literally every company now
youtube.com/shorts/hL9pl...
35% increase in applications to the ERC consolidator grants. This is not sustainable and it will result in too low acceptance rates. The ERC budget needs to be drastically increased.
erc.europa.eu/news-events/...
A profile picture of Douglas Prasher from Martin Chalfie's Nobel Lecture
Do you know who Douglas Prasher is? Many don't, even though he is the person who cloned the original #GFP gene in the late 1980s. In my short history of plant light #microscopy I also cover a bit of his story - & why he is relatively unknown today, despite the importance of his work. See this 🧵👇
