Shyamal

I fucking hate proline so fucking much it's the worst amino acid it's so fucking stupid it's incapable of being fucking normal so it forms an ugly ass ring with itself with its own fucking nitrogen cuz it's a loser fucking amino acid I hate it so much I'd rather cut off my right tit than have to ever draw a mechanism with proline ever again

Remember that everyone you meet is fighting their own battle, sometimes with amino acids

Context-dependent translation inhibition as a cancer therapeutic modality - Nature Communications Robust protein synthesis by the ribosome is required for rapid cancer growth. Here authors present interdictors, small molecule inhibitors of protein synthesis with context-dependent activity that inh...

Incredibly proud of our small but mighty team at Interdict Bio as we bring the interdictor modality closer to the clinic! Check out our first publication that lays the foundation for context-dependent translation modulators as a therapeutic approach for cancer!
www.nature.com/articles/s41...

Graduate student Martin Fernandez just won the best poster 🏆 at the Gordon Research Conference on ‘Frontotemporal Dementia and Related Rare Dementias’

#proudPI

Please spread the word: the Structural Studies Division @mrclmb.bsky.social is looking for a new tenure-track, independent group leader with an exciting plan in any area of Structural (Molecular & Cell) biology, in discovery biology and/or methods development. 🥳

mrc.tal.net/vx/mobile-0/...

Happy birthday to one of my favourite haters, Charles Darwin

I am getting excited about teaching at this! I think we're going to do copick, membrain-seg, morphometrics, and surforama on my day!

Cryo-electron tomogram on a navy background with text: Cryo-ET Data Processing Workshop. June 7-11, 2026

Join us this summer for U-M's 2026 #CryoET Data Processing Workshop!
This four-day workshop will introduce participants to standard image processing packages and all aspects of cryo-ET data processing.
Apply by March 20: myumi.ch/lsi-cryo-workshop-2026

@jbquerido.bsky.social @shyamalm.bsky.social

Caveolins are conserved (metazoan) proteins essential for forming membrane-derived vesicles called caveolae.

While evolutionarily distant caveolins have similar structures, we found they do not maintain caveolae-generating capabilities (movie).

What determines this? Check out our new preprint!

Introducing The Structural History of Eukarya (SHE): The first proteome-scale phylogeny constructed entirely from 3D structure.
We computed 300 trillion alignments across 1,542 species to map the tree of life. 🧵👇 (1/5)

GitHub - GrotjahnLab/surface_morphometrics: Morphometrics for Membrane Surfaces Segmented from Cryo-ET or other volumetric imaging. Morphometrics for Membrane Surfaces Segmented from Cryo-ET or other volumetric imaging. - GrotjahnLab/surface_morphometrics

I've been working on Surface Morphometrics for a new version (coming soon), and made some significant (AI-assisted) performance improvements, especially in pycurv (20-50x!). If you've had technical issues or just felt like it was too slow, give it another try! #teamtomo github.com/GrotjahnLab/...

AI-generated data contamination erodes pathological variability and diagnostic reliability Generative artificial intelligence (AI) is rapidly populating medical records with synthetic content, creating a feedback loop where future models are increasingly at risk of training on uncurated AI ...

"AI is rapidly populating medical records with synthetic content, creating a feedback loop [that] drives a rapid erosion of pathological variability and diagnostic reliability...this renders AI generated documentation clinically useless after just two generations" www.medrxiv.org/content/10.6...

EMBL is deeply saddened by the passing of our Interim Director General Peer Bork, a pioneering scientist who left an indelible imprint on life science research in Europe and beyond.

We extend our deepest condolences to his family, friends, and colleagues.

www.embl.org/news/people-...

We are running the cryo-ET image processing workshop again this year! Come learn everything tomo: STA, segmentation, heterogeneity analysis from @baradlab.com @williamnwan.bsky.social and others!

Apply!

#Postdoc job opportunity: The Pereira lab at the LSI is seeking a postdoctoral researcher help develop cutting-edge experimental and computational approaches to accelerate #NaturalProduct discovery. Learn more and apply:
careers.umich.edu/job_detail/2...

Online today, the journal version of our ( @nanigrotjahn.bsky.social @attychang.bsky.social @mmedina300kv.bsky.social) manuscript from earlier this year describing membrane thickness measurement in cells with #teamtomo! rupress.org/jcb/article/...

Wow! Amazing stuff from @matteoall.bsky.social. Congratulations to all the authors involved.

It’s out! Using cryo-ET in Dicty cells, we take a fresh in situ look at vaults. Surprisingly, we uncover vaults associated with ER and NE membranes, and find that many vaults enclose ribosomes in defined orientations, opening new avenues to their cellular function! www.biorxiv.org/lookup/conte...

Check out our new work! In collaboration with @moitrayee-lab.bsky.social lab at Yale!

I would be particularly keen to chat with #cryoET experts who would be interested in working on exciting new models of neurodegeneration, but the brief is wide open and could involve tau filament formation with recombinant protein, in cell cultures or in mice.

Metabolic engineering and late-stage functionalization expand the chemical space of the antimalarial premarineosin A - Communications Chemistry Premarineosin A, a potent and selective antimalarial natural product, is a promising yet underexplored scaffold due to its limited availability and synthetic complexity. Here, the authors employ metab...

Thrilled to share my recent work from the Pereira and Sherman Labs at @umlifesciences.bsky.social, out now in Communications Chemistry! We applied metabolic engineering, semi-synthesis, and biocatalysis to expand access to the antimalarial natural product premarineosin A. I suggest you check it out!

Proteome-wide in silico screening for human protein-protein interactions Protein-protein interactions (PPIs) drive virtually all biological processes, yet most PPIs have not been identified and even more remain structurally unresolved. We developed a two-step computational...

Thrilled to share that the final piece of my PhD work is now on bioRxiv! biorxiv.org/content/10.1... With support from @nvidia and the @NSF, we used AlphaFold to screen 1.6M+ protein pairs, revealing thousands of potential novel PPIs. All data can be viewed at predictomes.org/hp

Just published! We share an open-source workflow to measure membrane thickness from tomograms, including a tutorial with 3D visualizations. We analyze thickness variations across organelles and reflect on where to define a membrane boundary. @becklab.bsky.social #teamtomo rupress.org/jcb/article/...

While tau adopts PHF/SF folds as expected in Alzheimer's, the CTE-fold might be a common occurrence in pathologies with TDP-43 aggregation. The exact molecular mechanisms that drive this remain to be investigated.

CTE-Type Tau Filaments in Alzheimer's Disease with Co-morbid LATE-NC Alzheimer's disease (AD), the most common neurodegenerative disease, is defined by β-amyloid plaques and tau neurofibrillary tangles. Tau filaments in AD adopt the Alzheimer's fold, which is distinct ...

Happy to share this satellite story. Structure of tau filaments from the amygdala of patients with mixed pathologies #Alzheimer’s and LATE.

Strikingly, none of the patients had documented head injury or trauma but tau adopts a CTE-fold

Preprint: www.biorxiv.org/content/10.1...

Nothing short of spectacular!🤩

Very excited that my final postdoctoral work is now online in Cell @cellpress.bsky.social.

www.sciencedirect.com/science/arti...

Using 16 (!) cryo-EM structures, we uncovered how the three proteins coronin, cofilin and AIP1 work together to rapidly disassemble actin filaments.

Great discussion here!

Engineering Spatial Control of Bacterial Organelles Bacteria were once thought to lack organelles, but it is now clear they confine cellular reactions using an array of membrane- and protein-based compartments. A central question, however, is how bacte...

New PrePrint from the Vecchiarelli and Mosalaganti (@shyamalm.bsky.social) labs! 🧵

Collaboration with the Giessen and Pi labs

Congratulations to co-first authors Y Hoang (@hoanghamyy.bsky.social) and Pankaj Jadhav!

www.biorxiv.org/content/10.1...

Ever wondered how to position organelles in bacteria? Wonder no more!
Happy to have contributed to this fantastic story from @cellforganized.bsky.social' lab.

The avenues this opens in the synthetic biology space are enormous!

Movie: Carboxysomes positioned in E. coli!

Preprint: shorturl.at/D6xVg