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Reposted by Atty (Ya-Ting) Chang

Danielle Grotjahn @nanigrotjahn.bsky.social · May 10

It’s been a big week for the Grotjahn Lab—our very first graduate student, @mmedina300kv.bsky.social, successfully defended her PhD thesis! 🎉 So proud of everything she’s accomplished and grateful for the light she’s brought to our lab from day one ☀️⚡

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Florent Waltz @florentwaltz.bsky.social · May 6

You want to start tomography? Solve structures inside cells? Reach Nyquist 😳 ? @phaips.vd.st and I have a website for you! tomoguide.github.io
You'll find a tutorial on how to reconstruct tomograms, pick particles and do subtomogram averaging, using different software!
Hope it will be useful !

3.8 angstrom resolution ribosome from 33 tomograms

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Reposted by Atty (Ya-Ting) Chang

Michaela Medina @mmedina300kv.bsky.social · May 1

So excited for this work to be out!! Thanks to @attychang.bsky.social, @hamid13r.bsky.social, blue sky less Daniel Fuentes, @nanigrotjahn.bsky.social and @tomo.science!!!

Danielle Grotjahn @nanigrotjahn.bsky.social · May 1

🚨New preprint!🚨 #teamtomo
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.

Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science

bioRxivpreprint @biorxivpreprint.bsky.social · May 1

Surface morphometrics reveals local membrane thickness variation in organellar subcompartments https://www.biorxiv.org/content/10.1101/2025.04.30.651574v1

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Reposted by Atty (Ya-Ting) Chang

Danielle Grotjahn @nanigrotjahn.bsky.social · May 1

🚨New preprint!🚨 #teamtomo
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.

Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science

bioRxivpreprint @biorxivpreprint.bsky.social · May 1

Surface morphometrics reveals local membrane thickness variation in organellar subcompartments https://www.biorxiv.org/content/10.1101/2025.04.30.651574v1

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Reposted by Atty (Ya-Ting) Chang

Ricardo D. Righetto @lifeonthewedge.bsky.social · Apr 28

To all #ChlamyDataset enthusiasts, here is a script that lets you directly import the pre-processed results from EMPIAR-11830 into #RELION v5 for subtomogram averaging:

github.com/Chromatin-St...

#Chlamydomonas #TeamTomo #CryoET #OpenSoftwareAcceleratesScience

ChlamyAnnotations/chlamydataset2relion5 at master · Chromatin-Structure-Rhythms-Lab/ChlamyAnnotations

Particle annotations for the large-scale cryo-ET dataset of Chlamydomonas reinhardtii - Chromatin-Structure-Rhythms-Lab/ChlamyAnnotations

github.com

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Ricardo D. Righetto @lifeonthewedge.bsky.social · Apr 23

We have updated our #MemBrain v2 preprint with a lot more details about the MemBrain-pick and MemBrain-stats modules, as well as some application examples!

Stay tuned for the upcoming thread by lead author @lorenzlamm.bsky.social! 🧠🧵

#CryoET #TeamTomo
www.biorxiv.org/content/10.1...

Figure 4. MemBrain v2 end-to-end workflow detects periodic phycobilisome organization. A: Raw tomogram slice of EMD-31244. B: Out-of-the-box MemBrain-seg segmentation (light blue). C: A single membrane instance can be visualized in Surforama and manually annotated with GT phycobilisome positions (magenta). D: MemBrain-pick localizes particles (trained with data from C) on all membranes in the tomogram. E: MemBrain-stats computes Ripley’s O statistic using the positions from D with a bin size of 5nm. The distance between peaks (35 nm) was measured to estimate chain unit spacings.

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Atty (Ya-Ting) Chang @attychang.bsky.social · Apr 23

Thanks for your sharing!😊

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Atty (Ya-Ting) Chang @attychang.bsky.social · Apr 10

Feeling so honored and thrilled to see our work make it to the cover—what a milestone in my career! I can’t wait to receive the poster from JCB🤩

Journal of Cell Biology @jcb.org · Apr 7

Our April issue is here! rupress.org/jcb/issue/22...
The cover shows a segmented model of cytoplasmic #ribosomes associated with mitochondrial membrane in a Saccharomyces cerevisiae cell. From Ya-Ting Chang, @nanigrotjahn.bsky.social and colleagues (doi.org/10.1083/jcb....)

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Atty (Ya-Ting) Chang @attychang.bsky.social · Apr 9

Happy to share the first paper in my PhD is published in JCB!
It's my honor to work with amazing teammates! I really enjoy exploring mitochondrial protein import mechanism through cryo-ET!

Journal of Cell Biology @jcb.org · Mar 13

Cytoplasmic #ribosomes on #mitochondria alter the local membrane environment for protein import, say Ya-Ting Chang, Danielle Grotjahn (@nanigrotjahn.bsky.social) @scripps.edu and colleagues: rupress.org/jcb/article/...

#ProteinHomeostasis #Organelles #StructuralBiology #CryoET

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Journal of Cell Biology @jcb.org · Mar 13

Cytoplasmic #ribosomes on #mitochondria alter the local membrane environment for protein import, say Ya-Ting Chang, Danielle Grotjahn (@nanigrotjahn.bsky.social) @scripps.edu and colleagues: rupress.org/jcb/article/...

#ProteinHomeostasis #Organelles #StructuralBiology #CryoET

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