Marcel Dickmanns | πΏβοΈπ¬
@madic.bsky.social
Shooting electrons, ions and photons (mainly) at plants to study cell-cell communication @mpibiochem.bsky.social & @hhu.de
Pinned
New preprint: In situ Architecture of #Plasmodesmata.
Using #cryoET, #AlphaFold & proteomics, we uncover the native organization of plant intercellular nanopores.
π doi.org/10.1101/2025...
π§ͺπ§΅1/n
#teamtomo #PlantScience #Physcomitrium #Arabidopsis #cryoEM
Using #cryoET, #AlphaFold & proteomics, we uncover the native organization of plant intercellular nanopores.
π doi.org/10.1101/2025...
π§ͺπ§΅1/n
#teamtomo #PlantScience #Physcomitrium #Arabidopsis #cryoEM
"Simulations show that for most study designs and settings, it is more likely for a research claim to be false than true."
dx.plos.org/10.1371/jour...
dx.plos.org/10.1371/jour...
Why Most Published Research Findings Are False
Published research findings are sometimes refuted by subsequent evidence, says Ioannidis, with ensuing confusion and disappointment.
dx.plos.org
January 6, 2026 at 4:05 PM
"Simulations show that for most study designs and settings, it is more likely for a research claim to be false than true."
dx.plos.org/10.1371/jour...
dx.plos.org/10.1371/jour...
I might stay for some honest soul-baring.
January 6, 2026 at 2:29 AM
I might stay for some honest soul-baring.
Wonder whats wrong with this place. Do we need more emojis, more "thrilled to announce" and "happy to share", and "congratulationsπ₯³" as super pesonal one-click option?
(pls no!)
(pls no!)
January 6, 2026 at 1:42 AM
Wonder whats wrong with this place. Do we need more emojis, more "thrilled to announce" and "happy to share", and "congratulationsπ₯³" as super pesonal one-click option?
(pls no!)
(pls no!)
They are marks of authenticity now.
December 31, 2025 at 8:52 PM
They are marks of authenticity now.
Microsoft spell check trying to sabotage reviewer replies again π
December 23, 2025 at 5:32 PM
Microsoft spell check trying to sabotage reviewer replies again π
Reposted by Marcel Dickmanns | πΏβοΈπ¬
Final version is out! Our large-scale cryo-ET dataset π¬ of Chlamydomonas reinhardtii π¦ is now published in @cp-molcell.bsky.social
Huge collaborative effort! So glad to see the community already using it to develop new resources & tools.
Check it out here: shorturl.at/z4i4c
#CryoEM #CryoET
Huge collaborative effort! So glad to see the community already using it to develop new resources & tools.
Check it out here: shorturl.at/z4i4c
#CryoEM #CryoET
December 19, 2025 at 4:45 PM
Final version is out! Our large-scale cryo-ET dataset π¬ of Chlamydomonas reinhardtii π¦ is now published in @cp-molcell.bsky.social
Huge collaborative effort! So glad to see the community already using it to develop new resources & tools.
Check it out here: shorturl.at/z4i4c
#CryoEM #CryoET
Huge collaborative effort! So glad to see the community already using it to develop new resources & tools.
Check it out here: shorturl.at/z4i4c
#CryoEM #CryoET
All of the above, often minus FP OE. On top, I find it helpful to consider the broader functional context. What interactors are known? Relevant sequence motifs present? Domain annotations? What are orthologs in other species doing? etc.
December 18, 2025 at 12:53 PM
All of the above, often minus FP OE. On top, I find it helpful to consider the broader functional context. What interactors are known? Relevant sequence motifs present? Domain annotations? What are orthologs in other species doing? etc.
Entire cytoplasts even. Curious to see what happens where both plasma membranes meet.
Different species' but the images in here are amazing too: link.springer.com/article/10.1...
Different species' but the images in here are amazing too: link.springer.com/article/10.1...
Experimental evidence for enzymatic cell wall dissolution in a microbial protoplast feeder (Orciraptor agilis, Viridiraptoridae) - BMC Biology
Background Several protists have evolved the ability to perforate the cell walls of algae and fungi to specifically feed on their cell contents. These phagotrophic βprotoplast feedersβ represent an in...
link.springer.com
December 17, 2025 at 8:26 PM
Entire cytoplasts even. Curious to see what happens where both plasma membranes meet.
Different species' but the images in here are amazing too: link.springer.com/article/10.1...
Different species' but the images in here are amazing too: link.springer.com/article/10.1...
Reposted by Marcel Dickmanns | πΏβοΈπ¬
To build the body plan of an animal, cells must adhere to one another via cell-cell junctions. We now know these assemble as punctate protein complexes containing thousands of proteins, but how this occurs remains mysterious. 1/n π§ͺ
www.molbiolcell.org/doi/full/10....
www.molbiolcell.org/doi/full/10....
December 14, 2025 at 2:59 PM
To build the body plan of an animal, cells must adhere to one another via cell-cell junctions. We now know these assemble as punctate protein complexes containing thousands of proteins, but how this occurs remains mysterious. 1/n π§ͺ
www.molbiolcell.org/doi/full/10....
www.molbiolcell.org/doi/full/10....
Hey Mark, pretty cool thanks for the thread. Any idea what the Cno nuclear localization is about - randomly passing in and out or does it have nuclear function?
December 15, 2025 at 1:53 PM
Hey Mark, pretty cool thanks for the thread. Any idea what the Cno nuclear localization is about - randomly passing in and out or does it have nuclear function?
Jan 2024 apparently.
www.embo.org/press-releas...
www.embo.org/press-releas...
Springer Nature and EMBO cooperate to publish the EMBO Press suite of journals β Press releases β EMBO
New partnership reflects shared commitment to Open Access and Open Science
www.embo.org
December 12, 2025 at 1:08 PM
Jan 2024 apparently.
www.embo.org/press-releas...
www.embo.org/press-releas...
Reposted by Marcel Dickmanns | πΏβοΈπ¬
π₯³ Our new paper on C2CD3 is out in @plosbiology.org
With the labs of @cellarchlab.com , @chgenoud.bsky.social , and @stearnslab.bsky.social , we revealed the mammalian centriole Distal Ring architecture by combining #UExM and in situ #CryoET.
Big congrats to @ebertiaux.bsky.social and all involved.
With the labs of @cellarchlab.com , @chgenoud.bsky.social , and @stearnslab.bsky.social , we revealed the mammalian centriole Distal Ring architecture by combining #UExM and in situ #CryoET.
Big congrats to @ebertiaux.bsky.social and all involved.
How does C2CD3 contribute to distal appendage formation in centrioles? @centriolelab.bsky.social show that C2CD3 acts as a central architectural organizer of the distal #centriole, bridging the luminal distal ring complex & peripheral appendage sites @plosbiology.org π§ͺ plos.io/496XZuH
December 10, 2025 at 12:36 PM
π₯³ Our new paper on C2CD3 is out in @plosbiology.org
With the labs of @cellarchlab.com , @chgenoud.bsky.social , and @stearnslab.bsky.social , we revealed the mammalian centriole Distal Ring architecture by combining #UExM and in situ #CryoET.
Big congrats to @ebertiaux.bsky.social and all involved.
With the labs of @cellarchlab.com , @chgenoud.bsky.social , and @stearnslab.bsky.social , we revealed the mammalian centriole Distal Ring architecture by combining #UExM and in situ #CryoET.
Big congrats to @ebertiaux.bsky.social and all involved.
Totally! And they rate outputs from their own model family higher.
arxiv.org/abs/2508.06709
At this stage, automated text review should probably average across multiple models.
arxiv.org/abs/2508.06709
At this stage, automated text review should probably average across multiple models.
December 6, 2025 at 1:09 AM
Totally! And they rate outputs from their own model family higher.
arxiv.org/abs/2508.06709
At this stage, automated text review should probably average across multiple models.
arxiv.org/abs/2508.06709
At this stage, automated text review should probably average across multiple models.
Where do I queue for squid takeover stickers?
December 1, 2025 at 6:18 PM
Where do I queue for squid takeover stickers?
Depends on the cell type and downstream processing but chemical lysis is gentle (detergent + enzymes). Probably cheaper than a pressure homogenizer short- to medium-term?
December 1, 2025 at 4:59 PM
Depends on the cell type and downstream processing but chemical lysis is gentle (detergent + enzymes). Probably cheaper than a pressure homogenizer short- to medium-term?
Reposted by Marcel Dickmanns | πΏβοΈπ¬
We're back for our final seminar of 2025 with talks from @alexholehouse.bsky.social and Birthe Kragelund! 1 pm EST or 7 pm European time. If you're not already signed up, head on over to idpseminars.com to register!
December 1, 2025 at 4:01 PM
We're back for our final seminar of 2025 with talks from @alexholehouse.bsky.social and Birthe Kragelund! 1 pm EST or 7 pm European time. If you're not already signed up, head on over to idpseminars.com to register!
Murnau Conference nailing the hot topic:
"The overarching theme of this edition will be β(Un)structural biology: in situ, in vitro, in silicoβ. Besides amazing cellular and 4D structural biology, we will have a session covering the topic of condensate structural biology."
π murnauconference.de
"The overarching theme of this edition will be β(Un)structural biology: in situ, in vitro, in silicoβ. Besides amazing cellular and 4D structural biology, we will have a session covering the topic of condensate structural biology."
π murnauconference.de
December 1, 2025 at 9:52 AM
Murnau Conference nailing the hot topic:
"The overarching theme of this edition will be β(Un)structural biology: in situ, in vitro, in silicoβ. Besides amazing cellular and 4D structural biology, we will have a session covering the topic of condensate structural biology."
π murnauconference.de
"The overarching theme of this edition will be β(Un)structural biology: in situ, in vitro, in silicoβ. Besides amazing cellular and 4D structural biology, we will have a session covering the topic of condensate structural biology."
π murnauconference.de
CryoET of symbiotic cell-cell interfaces π¦π¦
π www.biorxiv.org/content/10.1...
π www.biorxiv.org/content/10.1...
December 1, 2025 at 9:45 AM
CryoET of symbiotic cell-cell interfaces π¦π¦
π www.biorxiv.org/content/10.1...
π www.biorxiv.org/content/10.1...
Reposted by Marcel Dickmanns | πΏβοΈπ¬
AI model Helixer predicts eukaryotic genes ab initio, directly from a plain text FASTA file.
No RNA-seq.
No protein homology.
No repeats, hints, or curated evidence.
Raw genome β accurate gene models.
Deep learning + HMM, published in @natmethods.nature.com
www.nature.com/articles/s41...
No RNA-seq.
No protein homology.
No repeats, hints, or curated evidence.
Raw genome β accurate gene models.
Deep learning + HMM, published in @natmethods.nature.com
www.nature.com/articles/s41...
Helixer: ab initio prediction of primary eukaryotic gene models combining deep learning and a hidden Markov model - Nature Methods
By leveraging both deep learning and hidden Markov models, Helixer achieves broad taxonomic coverage for ab initio gene annotation of eukaryotic genomes from fungi, plants, vertebrates and invertebrat...
www.nature.com
November 26, 2025 at 6:00 AM
AI model Helixer predicts eukaryotic genes ab initio, directly from a plain text FASTA file.
No RNA-seq.
No protein homology.
No repeats, hints, or curated evidence.
Raw genome β accurate gene models.
Deep learning + HMM, published in @natmethods.nature.com
www.nature.com/articles/s41...
No RNA-seq.
No protein homology.
No repeats, hints, or curated evidence.
Raw genome β accurate gene models.
Deep learning + HMM, published in @natmethods.nature.com
www.nature.com/articles/s41...
Like PAGE ruler but 10 kDa blue instead of green. Otherwise scarily real looking!
November 26, 2025 at 6:14 PM
Like PAGE ruler but 10 kDa blue instead of green. Otherwise scarily real looking!
(couple years later AF2 dropped and 'do we still need to crystallize small domains?' became a valid question)
November 25, 2025 at 6:26 PM
(couple years later AF2 dropped and 'do we still need to crystallize small domains?' became a valid question)
As undergrad I had to purify and crystallize a new protein that kept aggregating no matter what. In distress fantasized about an algorithm to predict good buffer conditions & mutations.
This dataset + whatβs in PDB already would be a decent start.
This dataset + whatβs in PDB already would be a decent start.
New preprint! We measured temperature- and pH-induced aggregation for over 18,000 natural and de novo designed protein domains!
November 25, 2025 at 6:24 PM
As undergrad I had to purify and crystallize a new protein that kept aggregating no matter what. In distress fantasized about an algorithm to predict good buffer conditions & mutations.
This dataset + whatβs in PDB already would be a decent start.
This dataset + whatβs in PDB already would be a decent start.
Reposted by Marcel Dickmanns | πΏβοΈπ¬
We (Nordborg & Weigel labs) need input on the next generation of genome browsers & data download modes for the #Arabidopsis #1001GenomesPlus project. We have now a curated collection of over 500 long read genomes.
Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Next generation of 1001 Genomes Plus browser and data download
Please indicate all features you would like to see in a browser that displays features of completely sequenced Arabidopsis thaliana genomes
docs.google.com
November 24, 2025 at 2:49 PM
We (Nordborg & Weigel labs) need input on the next generation of genome browsers & data download modes for the #Arabidopsis #1001GenomesPlus project. We have now a curated collection of over 500 long read genomes.
Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Reposted by Marcel Dickmanns | πΏβοΈπ¬
Why IDPs Are Poor Candidates for Homotypic LLPS
π§΅πA thread
π§΅πA thread
November 20, 2025 at 6:32 PM
Why IDPs Are Poor Candidates for Homotypic LLPS
π§΅πA thread
π§΅πA thread