Show newer

3,013 neurons, half a million synapses: the complete #connectome of the whole #Drosophila larval brain!

Winding, Pedigo et al. 2022. "The connectome of an insect brain" biorxiv.org/content/10.1101/20

We’ve mapped and analysed its circuit architecture, from sensory neurons to brain output neurons, as reconstructed from volume electron microscopy, and here is what we found. 1/

#neuroscience #connectomics #vEM #volumeEM

Hi Mastodon! I'm a journalist at @sciencemagazine, where I delve into stories about the scientific community and the various challenges that come with pursuing a career in science. I'm a former scientist myself—I earned a Ph.D. in ecology and did a stint as a postdoc before realizing that the best career path for me lay elsewhere. Feel free to get in touch if you'd like to introduce yourself or suggest a story idea. #ScienceMastodon #academicchatter

Hello #ScienceMastodon! I am an assistant professor in the MIT Department of Biology with our lab based at the Koch Institute. We build tools for high-throughput functional genomics in mice in order to understand and modulate regenerative capacity across mammalian tissues.

knouselab.org/

I do like it here on Mastodon, but the huge influx of people from Twitter means there are far fewer image descriptions than from even a couple of weeks ago. I’d love to tell every one of them about this, but quite frankly there are so many I don’t have the patience. I’d dearly love it if apps could block posts unless an image description was added to every photo, but I suppose that’s too much to hope for. I’m feeling really excluded from so many conversations. It’s getting as bad as Twitter.

Okay #introduction / #introductions time!!
My interests revolve around systems of subcellular organisation, from a #cellbiology and #biophysics perspective. I’m particularly focussed on #MembraneContactSites between organelles in funky cells like #neurons. I use a bunch of #microscopy techniques (#ElectronMicroscopy / #SuperResolution) alongside in vitro reconstitution systems to study contact site biology. The #EndoplasmicReticulum is the best organelle…this is a hill I am prepared to die on.

My first #toot on the woolly mammoth thing. I was rubbish at twitter, I'll probably be worse on Mastodon...but here are some neurons as a way of a premature apology :)

RT @jimrosecircus1@twitter.com

The smallest bird in the world is the Zunzunito, also know as the bee bird.

🐦🔗: twitter.com/jimrosecircus1/sta

Our review on synthetic developmental biology is out
@ScienceMagazine
!

@GMartinezAra
and
@KStapornwongkul
discussed what developmental processes have been reconstituted/controlled so far and what tools/approaches will be the key in the next stages.

science.org/doi/10.1126/scienc

#introduction:
We are a new cell systems biology team at the #UniversityOfManchester #UoM.
We study #CellAdhesion #networks in health and disease, especially #cancer.
Fascinated by how adhesion proteins help #cells function in so many ways!

#proteomics #integrins #adhesion #cytoskeleton #nucleus #bioinformatics #omics #ExtracellularMatrix #ECM #NetworkBiology #DataViz

Still one of my favorite science music videos of all time. That and "The Molecular Shape of You" is some of the best sci-comms I have ever seen. Zero infantalization and rewarding on all levels.

#evodevo #scicomm #evolution

youtu.be/ydqReeTV_vk

Hi #ScienceMastodon. Have you already seen the latest post @preLights? 📜

prelights.biologists.com/highl

It has been written by #AarrenMannion #KarolinskaInstitutet who covers the #preprint from the lab of Anne-Clémence Vion working at the #InstitutThorax. In this work, the team of researchers show the importance of the guanine nucleotide exchange factor, ARHGEF18, in regulating endothelial cell alignment in the direction of flow. 🌊

#Biophysics #CellBiology #Endothelium #BloodFlow #Force

I guess I should introduce myself #onhere: I am a postdoc in the Schier Lab at the Biozentrum (Switzerland). I am using #zebrafish to understand the #development of the nervous system. I love developmental biology of classic and non-canonical organisms, microscopy, loud music and comic books. Very much looking forward to meeting other scientists and cool people!
PS: I also help co-managing @ZebrafishRock , so make sure to give them a follow for the latest zebrafish community news

"The great success of the AlphaFold programs poses the following questions: (i) What is the main reason for this success? (ii) What exactly do AlphaFolds do: prediction of the 3D protein structure based on its amino acid sequence and knowledge of the protein physics or recognition of this 3D structure, based on the similarity between some parts of its amino acid sequence and parts of sequences with already known 3D structures?"

biorxiv.org/content/10.1101/20

Does AlphaFold predict the spatial structure of a protein from physics or recognize it (its main parts and their association) using databases?

The great success of the AlphaFold programs poses the following questions: (i) What is the main reason for this success? (ii) What exactly do AlphaFolds do: prediction of the 3D protein structure based on its amino acid sequence and knowledge of the protein physics or recognition of this 3D structure, based on the similarity between some parts of its amino acid sequence and parts of sequences with already known 3D structures? The answers given in this paper are: The main reason for the tremendous success of the AlphaFold is (i) the usage of huge protein databases, which already cover all or almost all of the protein superfamilies existing in nature; (ii) using these databases and the resulting multiple sequence alignments and coevolutionary information (like correlations in pairs and especially in triplets of amino acid residues in the contacting chain regions), AlphaFold recognizes a 3D structure of the examined amino acid sequence by a similarity of this sequence (or its parts) to related sequences with already known 3D structures. Concluding, I have to emphasize that this paper does not diminish the merit and utility of AlphaFold; it only explains the basis of its success. ### Competing Interest Statement The authors have declared no competing interest.

www.biorxiv.org

Hi Everyone, I just switched server to @sciences.social. To re-introduce myself:

I’m a sociologist interested in transnational governance of scientific risks, especially in the realm of emerging life sciences. I am also interested in political participation and social movements relating to food, environment and citizen science.

Love cat, whisky, and Rembrandt.

#Introduction. #hellomastodon

Time for an #introduction

I'm a computational (bio)physicisct and have mostly worked with MD simulations of lipid membranes and membrane proteins but also some experience in machine learning and free energy calculations.

Currently I work as a senior scientist at Schrödinger in New York City, after doing a postdoc at Stanford University and a PhD at the Max Planck Institute of Biophysics.

Besides work, I'm an avid amateur photographer and I like reading about science, history, and languages.

I've been here since 2018, but it's time for an #introduction to all new people on the #fediverse!

I'm an Associate Professor at CEU, Austria. I work on #networkscience, in particular with problems related to network data analysis, including community detection and network reconstruction.

My works relies a lot on #Bayesian statistical inference, information theory, and statistical #physics.

I'm the author of the :gt: @graph_tool #python package for efficient network analysis, and the @netzschleuder network repository.

Here's a network data preview card for your viewing pleasure:

networks.skewed.de/net/trec_we

Not too bad .
I tried with hepatocyte polarity
galactica.org/?prompt=wiki+art
The AI nailed the principle of cell polarity and the description is pretty good.
I'm impressed that it got the "hepatic cord".
However, it completely missed the specifics of hepatocyte polarity: Hepatocytes have multiple basal and apical surfaces. Also, the fact that the apical surfaces are facing the gastrointestinal tract is not completely incorrect but a bit misleading.

'Resolving morphogenesis into quantifiable cell behaviours'

by Jeremy Green @jjbaglondon

Very cool poster with the review article in Development journal #Devbiol #Science #morphogenesis

doi.org/10.1242/dev.199794

Hi #devbio #devbiol Mastodon,

If you like sharing and discussing #preprints, you might like to know that Development publishes 'In preprints' articles.

Please do feel welcome to get in touch if you would be interested in writing an article on a preprint - or preprints - that interest you.

Learn more about this article type here: doi.org/10.1242/dev.200711

Preprints in Development

The last few years have seen the number of preprints in our field grow exponentially. More and more of us are posting preprints and coming to appreciate the benefits of preprinting. As authors, it gives us control over when we make our findings public. As readers, we're able to discover exciting findings in our field sooner than would be the case if the paper was only made accessible after the traditional peer-review and publishing process. Overall, it's clear that preprints are becoming an important feature of how we communicate our science, and they are also having a major impact on the way we think about scientific publishing.At Development, we've been preprint enthusiasts for many years. As editors, if we see a preprint that we think might be suitable for Development we'll write to the authors to invite them to submit their work for our consideration. We also encourage authors to post preprints, whether this is on bioRxiv or other preprint servers, and have simplified the process of co-submitting manuscripts to Development and bioRxiv (via direct portals in our submission systems). Not surprisingly, we've seen a steady increase in the number of authors using these routes; last year, approximately 20% of submitted articles were posted on bioRxiv via these portals (compared with just 8% in 2017) and, more broadly, just over 35% of articles published in Development were preprinted prior to formal publication.But, we realise that the growth in preprints brings new challenges. It is becoming increasingly difficult to keep up with the latest preprints in the field and to assess the importance and validity of studies outside our area of expertise. We have therefore been working on several ways to guide readers to relevant preprints. We post monthly lists of developmental and stem cell biology preprints on our online community site, the Node (https://thenode.biologists.com/monthly-preprint-list/). If there are any we've missed, please do let us know. Together with our publisher, The Company of Biologists, we are also involved in preLights (https://prelights.biologists.com/) – a community-run online resource that features short summaries of notable preprints. These are selected and written by an international group of early career researchers (‘preLighters’) who summarise and comment on the preprints they find most noteworthy. This initiative is helping to build interest in preprints and is assisting researchers as they try to navigate and digest the ever-growing preprint literature. Since its inception, nearly 1250 preLights have been posted and the site has received over 500,000 views. Moreover, we have recently begun to highlight some of these preLights in the journal's Table of Contents. We also participate in ASAPbio's ‘Preprint Reviewer Recruitment Network’ (https://asapbio.org/preprint-reviewer-recruitment-network). This scheme is a way for researchers to gain experience in peer-reviewing preprints and it also provides journals and editors with potential new reviewers to call on.Now, in this issue of Development, we are further extending our efforts to support the use of preprints by introducing a new article type – ‘In preprints’. Each ‘In preprints’ article will offer a summary of a recently posted preprint, or small number of related preprints, and provide some analysis of the work and put it into broader context. We're aiming for each article to be a succinct commentary that we hope readers will find useful and that will encourage further reading of the preprint or related work. Our intention is that our ‘In preprints’ feature becomes another way in which readers are guided to the preprints that matter the most to the field. We also hope they will encourage discussion and debate of the latest findings within our community.In line with our initiatives to support early career researchers (Briscoe and Grewal, 2021), we are encouraging more established investigators to team up with early career researchers to write ‘In preprints’ articles. We are particularly keen to see partnerships between researchers that haven't previously worked together, as we hope this will foster new interactions and discussions within a field. You can see the first ‘In preprints’ article in this issue of Development (Lowell and Blin, 2022), but keep your eye out for more in the future. If you are interested in writing an ‘In preprints’ piece, even if you don't yet have a preprint or writing partner in mind, do please get in touch.As preprints become an increasingly routine part of our scientific landscape, we hope you find ‘In preprints’ a useful and convenient way to stay on top of the latest research in the field. As always, we're interested in hearing from you, whether you have feedback on our existing preprint initiatives or suggestions for new ones, or if you simply want to tell us about how preprints have affected your research.

doi.org
Show older
Qoto Mastodon

QOTO: Question Others to Teach Ourselves
An inclusive, Academic Freedom, instance
All cultures welcome.
Hate speech and harassment strictly forbidden.