James Manton

Research Group Leader in Chemical/Synthetic Biology at MRC Laboratory of Molecular Biology Start your UK & international job search for academic jobs, research jobs, science jobs and managerial jobs in leading universities and top...

We are looking to recruit a tenure track group leader in the field of Chemical/Synthetic Biology (in the broadest sense) to lead a research program within the Division of Protein & Nucleic Acid Chemistry ( www.jobs.ac.uk/job/DNW809/r... ) at the MRC Laboratory of Molecular Biology (LMB).

Rising Talent Fellowship - MRC Laboratory of Molecular Biology RISING TALENT FELLOWSHIP In 2024 the MRC Laboratory of Molecular Biology (LMB) launched the first round of their three-year fully funded fellowship for

I'll soon be recruiting a postdoc fellow to join us @mrclmb.bsky.social to continue developing our programme to understand neuroimmune modulation🧠🔬🧬🩸🫁
If you're interested in joining us check also @erc.europa.eu MSCA actions, @wellcometrust.bsky.social & www2.mrc-lmb.cam.ac.uk/recruitment/...
DM'me

The only good use I've managed to find for generative AI is rewriting my paper abstracts in quatrain.

The Mind's Decay, A Fading Light

Niamh Burke (centre) receives the RMS Early Career Award from Lisa Maria Needham (left) and Michelle Peckham (right)

Massive congratulations to Niamh Burke @niamh-deburca.bsky.social on winning the 2025 @rmsearlycareer.bsky.social Early Career Award, with her talk on the enderscope community project, co-developing accessible imaging tools with the public. 😀🙌🔬👍

@bioimaginguk.bsky.social

Nuts and bolts! A good stock and organizational system pays dividends over the years...

-> Here's a good @thorlabs.bsky.social system with 19" racks (RK3884), shelves (RK4101), boxes (S19228) and trays (www.schallercorporation.com). If you can bare the initial setup effort it's well worth it! ;)

#PhysicsTrivia what is the link between these two pictures?

To not spoil it for others: they're both known for something John Scott Russell would chase on horseback?

To tilt or not to tilt? Strategies for in situ cryo-EM data collection Recent breakthroughs in single-particle cryogenic electron microscopy (cryo-EM) and protein structure prediction have transformed our ability to resol…

Check out our recent review discussing the merits of tilt series vs single micrographs for in situ cryo-EM! www.sciencedirect.com/science/arti...

A picture of 3 rows of people on steps at the MRC LMB. From left to right - top row: Akaash, Vic, Lara - Middle row: Kerrie, Manu, Paddy - bottom row: Meg and Julie

🚨 JOB ALERT 🚨
We're hiring a Research Assistant – no PhD needed!
Join us to explore the molecular mechanisms of receptor sorting in endosomes.
Experience in protein expression/purification, cloning & cell culture desired 🧫🔬
Apply now 👉 www.nature.com/naturecareer...

#STEMCareers #ResearchJobs

Very nice! COS-7?

This is a cumulative maximum intensity projection movie of the endoplasmic reticulum labeled with the membrane marker mEmerald-Sec61B.

Excited to share some recent work tracking the 3D movement of individual molecules inside the organelles of living cells (💡+ 🦠 + ⚽️💨) with the best team @joechambers.bsky.social
@jamesdmanton.bsky.social
@jsbeckwith.bsky.social @dgershlick.bsky.social @stevethechemist.bsky.social

Adaptive optics oblique plane microscopy of 100 um thick mouse brain slice with immunofluorescence.

Spending some time at #lsfm25 cleaning up code. It now has distributed GPU gradient-consensus RL decon (@jamesdmanton.bsky.social @andrewgyork.bsky.social) our fast orthogonal deskew, and stitching/fusion to ome-ngff v0.5. Example AO-OPM data on uncleared mouse brain slice github.com/QI2lab/opm-p...

Hour-long voltage imaging in behaving mice! Capitalizing on the high photostability and brightness of mBaoJin, we developed eFRET GEVIs, named ElectraOFF, which extends reliable single spike detection at cellular resolution beyond one hour biorxiv.org/content/10.1...

Temporal and spatial coordination of DNA segregation and cell division in an archaeon. Cells must coordinate DNA segregation with cytokinesis to ensure that each daughter cell inherits a complete genome. Here, we explore how DNA segregation and division are mechanistically coupled in ar...

We are excited to share our preprint describing how Sulfolobus cells coordinate DNA segregation with cell division! In eukaryotes this type of regulation involves checkpoints and CDK-cyclins. But how does this work in archaea? This is the question we ask in our paper: www.biorxiv.org/content/10.1...

I am desirous of this rather impressive objective lens.

Now out in JACS. pubs.acs.org/doi/full/10....
Grateful to thoughtful reviewers who found some errors in our model and encouraged us to make a better one! A renaissance in magnetobiology is coming...

(Following the previous release, @andrewgyork.bsky.social pointed out I could be more efficient with my "math" on one line, so now I've brought back the gradient consensus blurring that I removed some months ago in an efficiency drive)

In a deviation from our previous updates, our automatic parameter-free deconvolution code is now slightly _slower_ than before (~4.5 %), but more robust for low SNR data.

Standard: beryl.mrc-lmb.cam.ac.uk/rlgc_notebook/
Biggs-Andrews accelerated: beryl.mrc-lmb.cam.ac.uk/rlgc_notebook/

Need to play more with it but so far works great on this OPM data.

Introducing warpfield, an open source Python library for GPU-accelerated non-rigid 3D registration. Warps and aligns gigavoxel volumes within seconds (not hours). For 3D microscopy, region-to-region and cell-to-cell matching.
A collaboration with @mh123.bsky.social 🚀
github.com/danionella/w...

This is very much beta software and has not been tested as extensively as the original implementation. Please use with caution and let me know how you get on. I'm particularly interested in cases, if they exist, where 'play it safe' mode overdoes it, as I've not found any examples of that yet.

4/4

For those that want to push further, you can untick 'play it safe' mode for even sharper images, although this comes with a risk of over-deconvolving the image. I don't recommend this, but the option is there for those that feel the original implementation was sometimes too conservative.

3/4

Importantly, this doesn't produce exactly the same output (slightly sharper), but deconvolving this 860×613×186 voxel stack now takes less than 45 s on a T4 instance. This is ~25× faster than the original implementation.

2/4

Thanks to a dose of activation energy from @dpshepherd.bsky.social, I've finally cleaned up my Biggs–Andrews accelerated version of our automatic parameter-free deconvolution code and made it available at beryl.mrc-lmb.cam.ac.uk/rlgcba_noteb.... This is ~2.75× faster than the previous version.

1/4

Aha! In that case, you might want to talk to @btoader.com!

If you just want to understand the algorithm better, rather than reference it, I'm sure @andrewgyork.bsky.social and/or myself would be happy to have a call and discuss it (it's Andy's great idea and my terrible code...).

Unfortunately not — I'm still writing the manuscript and with everything else going on it's taking quite a while. We're aiming to have a preprint out this summer.

As a speed reference, deconvolving this 860×613×186 voxel stack now takes less than two minutes on a T4 instance. This is much faster than many 'normal' deconvolution implementations and you don't have to tweak any settings!

* Using real FFTs and a custom CUDA kernel for gradient consensus.

2 / 2

Thanks to some CUDA trickery*, our automatic parameter-free deconvolution code is now ~3× faster than the previous version (~9× faster than the original) while still producing exactly the same results as before.

Try it out for free using Google Colab at beryl.mrc-lmb.cam.ac.uk/rlgc_notebook/

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