James Manton

@jamesdmanton.bsky.social

Applied physicist & microscopist/microscopologist

Lead the next discovery at the LMB. We’re recruiting Group Leaders to join our Structural Studies and @cellbiol-mrclmb.bsky.social Divisions. Benefit from long-term support, access to outstanding core-facilities and a collaborative environment where science thrives. ➡️ mrclmb.ac.uk/research-lea...

Curious about how life works? | MRC Laboratory of Molecular Biology

The LMB's Structural Studies and Cell Biology Divisions are each looking for a new Group Leader, at tenured or tenure-track level, to help solve the pu ...

mrclmb.ac.uk

I am looking for postdoc candidates for two opportunities in my lab at Lund University. 1. Co-application for a two-year postdoc scholarship on method development in 3D spatial biology, with applications in lung physiology, cancer and neuroscience.

GCHQ strikes again and deems knowledge of our new approach to tissue clearing too dangerous for public consumption! We're still working on the information included on the website, so hopefully we're unblocked by the time we've finished. If you never hear from me again you know what's happened...

A web warning from the National Cyber Security Centre, a part of GCHQ, stating:

"This site may be associated with malicious activity or malware.

Access to this site has been blocked by the Protective DNS Service

Site: replicaclearing.org

Please contact your local Network Administrator or IT support if you require further assistance"
James Manton@jamesdmanton.bsky.social · 5mo ago

It's not every day you set up a new website and have it blocked by the Government Communications Headquarters (GCHQ), an intelligence service so secretive the UK government didn't formally acknowledge its existence until 1994, 75 years after it was founded...

A web warning from the National Cyber Security Centre, a part of GCHQ, stating:

"This site may be associated with malicious activity or malware.

Access to this site has been blocked by the Protective DNS Service

Site: www.ctdvopm.org

Please contact your local Network Administrator or IT support if you require further assistance"

Yey, I figured out how to display 3D movie stacks in #ChimeraX, thanks to @dabiophysicist.bsky.social for the suggestion. My original tiff was not ome-tiff so you'll need to convert it first (do this with #Python), then adjust voxelsize in ChimeraX so the image isn't flat, record, and voila!

Anh Hoang Le, PhD 🏳️‍🌈🏴󠁧󠁢󠁳󠁣󠁴󠁿🇻🇳@anhhle2702.bsky.social · 3mo ago

One drawback tho and unless I'm not aware of an alternative, it seems if you want to display a time series stack, you have to save each time frame as a separate stack before loading them into #ChimeraX. If you don't, it will superimpose all timepoints into 1 single 3D stack. This, #napari is better!

New preprint! Using multiscale ExM/OPM/ASLM, we show that oncogenic drivers leave distinct 3D architectural fingerprints in intact liver tissue: NRAS primarily remodels cell shape, whereas CTNNB1 shifts mitochondrial architecture toward a pericentral-like state. tinyurl.com/kepy33m6

Deciphering the Multiscale Morphology of Somatic Oncogenic Alterations in Hepatocellular Carcinoma

Somatic oncogenic mutations are typically defined by their molecular alterations, yet how they reorganize cellular architecture within intact tissues remain largely unknown. Here, we demonstrate that ...

biorxiv.org

We've updated our cleared-tissue direct-view oblique plane microscopy preprint to include our latest resolution-enhancing results. Now the Nyquist sampling of our camera is no longer a limitation and so we obtain a diffraction-limited 2 μm lateral resolution! www.biorxiv.org/content/10.6...

An panel of three images showing 1) raw data, 2) bicubic interpolated data on a two-fold finer grid, 3) properly upsampled data on a two-fold finer grid, for two parallel neuronal filaments that can only be resolved as separate entities in the upsampled image.
James Manton@jamesdmanton.bsky.social · 5mo ago

We present: Index-agnostic oblique plane light sheet microscopy of centimetre-scale cleared tissues at subcellular resolution www.biorxiv.org/content/10.6...

Image of first two pages of manuscript.

In a series of 3 papers and preprints, we’re thrilled to share with you the working laser phase plate. In collaboration with research led by Holger Müller at UC Berkeley, this is a huge innovation in imaging to make small and faint objects inside cells visible. bit.ly/4vK9LVn

Waves of laser light coming from four different directions and meeting in the middle brightly inside the cavity of the laser phase plate

It's not every day you set up a new website and have it blocked by the Government Communications Headquarters (GCHQ), an intelligence service so secretive the UK government didn't formally acknowledge its existence until 1994, 75 years after it was founded...

A web warning from the National Cyber Security Centre, a part of GCHQ, stating:

"This site may be associated with malicious activity or malware.

Access to this site has been blocked by the Protective DNS Service

Site: www.ctdvopm.org

Please contact your local Network Administrator or IT support if you require further assistance"