Javi
@structjavi.bsky.social
Post-doc at the @wilflinglab.bsky.social in @mpibp.bsky.social
Previously EMBL Hamburg
#StructuralBiology under liquid Nitrogen #cryoEM / #cryoET
Mountain-lover
He/him
Previously EMBL Hamburg
#StructuralBiology under liquid Nitrogen #cryoEM / #cryoET
Mountain-lover
He/him
Reposted by Javi
Imaging large fields-of-view at high resolution in cryo-ET with square beam montaging https://www.biorxiv.org/content/10.64898/2026.08.27.747605v1
August 28, 2026 at 3:18 PM
Imaging large fields-of-view at high resolution in cryo-ET with square beam montaging https://www.biorxiv.org/content/10.64898/2026.08.27.747605v1
Reposted by Javi
August 28, 2026 at 1:17 PM
Reposted by Javi
Delighted that our story on chromatin architecture inside human cells is now published — the last chapter of my PhD. It was a pleasure working with @sergiocruzleon.bsky.social, @johannesbetz.bsky.social, and everyone involved. #teamtomo www.nature.com/articles/s41...
July 13, 2026 at 12:42 PM
Delighted that our story on chromatin architecture inside human cells is now published — the last chapter of my PhD. It was a pleasure working with @sergiocruzleon.bsky.social, @johannesbetz.bsky.social, and everyone involved. #teamtomo www.nature.com/articles/s41...
Reposted by Javi
Really hyped to share our pre-print on mtDNA replication-fission !
@nanigrotjahn.bsky.social
(doi: doi.org/10.64898/202...)
🧵with details below ⤵️
@nanigrotjahn.bsky.social
(doi: doi.org/10.64898/202...)
🧵with details below ⤵️
ATAD3A structurally links mtDNA replication and mitochondrial fission
Mitochondrial function depends on the maintenance of its genome, and disruptions in copy number and distribution are hallmarks of mitochondrial disorders. Mitochondrial DNA (mtDNA) replication is spat...
doi.org
June 27, 2026 at 1:14 AM
Really hyped to share our pre-print on mtDNA replication-fission !
@nanigrotjahn.bsky.social
(doi: doi.org/10.64898/202...)
🧵with details below ⤵️
@nanigrotjahn.bsky.social
(doi: doi.org/10.64898/202...)
🧵with details below ⤵️
Reposted by Javi
All of France is scorching hot today. Except for one village in the northwest...
June 23, 2026 at 2:50 PM
All of France is scorching hot today. Except for one village in the northwest...
Reposted by Javi
Easymode: general pretrained networks for cellular cryo-ET enable flexible approaches to subtomogram averaging https://www.biorxiv.org/content/10.64898/2026.05.19.726344v1
May 22, 2026 at 1:17 AM
Easymode: general pretrained networks for cellular cryo-ET enable flexible approaches to subtomogram averaging https://www.biorxiv.org/content/10.64898/2026.05.19.726344v1
Reposted by Javi
The architecture of carriers formed by AP3:ARF1 for lysosomal membrane protein transport: www.science.org/doi/10.1126/.... Work from @jggkaufman.bsky.social, in collaboration with @dgershlick.bsky.social and David Owen. @mpibiochem.bsky.social @thecimr.bsky.social
Architecture of clathrin-independent AP3:ARF1-coated carriers
AP3 generates clathrin-free carriers on endosomes by organizing via ARF1 dimers into elongated membrane-deforming arrays.
www.science.org
May 18, 2026 at 11:24 AM
The architecture of carriers formed by AP3:ARF1 for lysosomal membrane protein transport: www.science.org/doi/10.1126/.... Work from @jggkaufman.bsky.social, in collaboration with @dgershlick.bsky.social and David Owen. @mpibiochem.bsky.social @thecimr.bsky.social
Reposted by Javi
Thrilled to share the updated video of my paper in Nature with Maciej (under supervision of @simonemattei.bsky.social & @jomaalab.bsky.social) Proud to use Cryo-ET to uncover how hibernation factors are key to translation restart! To model PTMs in situ and render animations fulfilled my PhD dream!🥹🎉
May 14, 2026 at 8:12 AM
Thrilled to share the updated video of my paper in Nature with Maciej (under supervision of @simonemattei.bsky.social & @jomaalab.bsky.social) Proud to use Cryo-ET to uncover how hibernation factors are key to translation restart! To model PTMs in situ and render animations fulfilled my PhD dream!🥹🎉
Reposted by Javi
We're super excited to share MissAlignment: a new ML-based approach to reference-free tilt series alignment, spearheaded by @martenchaillet.bsky.social. We think it's going to make your cryo-ET life a lot better.
Preprint: www.biorxiv.org/content/10.6...
Code: github.com/warpem/miss-...
🧶 Thread:
Preprint: www.biorxiv.org/content/10.6...
Code: github.com/warpem/miss-...
🧶 Thread:
May 3, 2026 at 6:11 AM
We're super excited to share MissAlignment: a new ML-based approach to reference-free tilt series alignment, spearheaded by @martenchaillet.bsky.social. We think it's going to make your cryo-ET life a lot better.
Preprint: www.biorxiv.org/content/10.6...
Code: github.com/warpem/miss-...
🧶 Thread:
Preprint: www.biorxiv.org/content/10.6...
Code: github.com/warpem/miss-...
🧶 Thread:
Reposted by Javi
Preprint 🧵!
I’m really excited to introduce BIGSMALL, an interleaved multi-magnification cryo-ET scheme bridging molecular and cellular scales in a single acquisition!
BIGSMALL = 𝐁road 𝐈nformation 𝐆athering 𝐒trategy by 𝐌ultiscale 𝐀cquisition of lame𝐋𝐋a
www.biorxiv.org/content/10.6... (1/6)
I’m really excited to introduce BIGSMALL, an interleaved multi-magnification cryo-ET scheme bridging molecular and cellular scales in a single acquisition!
BIGSMALL = 𝐁road 𝐈nformation 𝐆athering 𝐒trategy by 𝐌ultiscale 𝐀cquisition of lame𝐋𝐋a
www.biorxiv.org/content/10.6... (1/6)
April 25, 2026 at 7:25 AM
Preprint 🧵!
I’m really excited to introduce BIGSMALL, an interleaved multi-magnification cryo-ET scheme bridging molecular and cellular scales in a single acquisition!
BIGSMALL = 𝐁road 𝐈nformation 𝐆athering 𝐒trategy by 𝐌ultiscale 𝐀cquisition of lame𝐋𝐋a
www.biorxiv.org/content/10.6... (1/6)
I’m really excited to introduce BIGSMALL, an interleaved multi-magnification cryo-ET scheme bridging molecular and cellular scales in a single acquisition!
BIGSMALL = 𝐁road 𝐈nformation 𝐆athering 𝐒trategy by 𝐌ultiscale 𝐀cquisition of lame𝐋𝐋a
www.biorxiv.org/content/10.6... (1/6)
Reposted by Javi
Out now in Nature Communications!
We show that Dictyostelium vaults associate with ER and NE membranes in situ and encapsulate ribosomes with defined orientations, shining new light on their cellular function! #TeamTomo #TeamMassSpec #ProtistsOnSky
www.nature.com/articles/s41...
We show that Dictyostelium vaults associate with ER and NE membranes in situ and encapsulate ribosomes with defined orientations, shining new light on their cellular function! #TeamTomo #TeamMassSpec #ProtistsOnSky
www.nature.com/articles/s41...
April 21, 2026 at 4:25 PM
Out now in Nature Communications!
We show that Dictyostelium vaults associate with ER and NE membranes in situ and encapsulate ribosomes with defined orientations, shining new light on their cellular function! #TeamTomo #TeamMassSpec #ProtistsOnSky
www.nature.com/articles/s41...
We show that Dictyostelium vaults associate with ER and NE membranes in situ and encapsulate ribosomes with defined orientations, shining new light on their cellular function! #TeamTomo #TeamMassSpec #ProtistsOnSky
www.nature.com/articles/s41...
Reposted by Javi
Excited to share our work on the structure and function of cytoplasmic lattices within mouse embryos. A collaborative effort with @niakanlab.bsky.social and work led by @kashishsingh.bsky.social and @inaharasimov.bsky.social . It is now out on BioRxiv: www.biorxiv.org/content/10.6...
March 24, 2026 at 1:25 PM
Excited to share our work on the structure and function of cytoplasmic lattices within mouse embryos. A collaborative effort with @niakanlab.bsky.social and work led by @kashishsingh.bsky.social and @inaharasimov.bsky.social . It is now out on BioRxiv: www.biorxiv.org/content/10.6...
Reposted by Javi
A Surfactant Cocktail Overcomes Air-Water Interface Artifacts in Single-Particle CryoEM www.biorxiv.org/content/10.64898/2026.03.17.712260v1 #cryoem
March 19, 2026 at 7:11 AM
A Surfactant Cocktail Overcomes Air-Water Interface Artifacts in Single-Particle CryoEM www.biorxiv.org/content/10.64898/2026.03.17.712260v1 #cryoem
Reposted by Javi
TIL what "unload sample from Compustage" of a cryo-EM actually looks like. Neat 🙂.
March 13, 2026 at 7:33 PM
TIL what "unload sample from Compustage" of a cryo-EM actually looks like. Neat 🙂.
Reposted by Javi
We have started a project trying to predic the interactions/structures of all yeast protein pairs using an AlphaFold pooling approach. We are making the current dataset open and we welcome collaborations.
www.evocellnet.com/2026/03/mapp...
www.evocellnet.com/2026/03/mapp...
Mapping the yeast atructural interactome with AlphaFold3: an open call for collaboration
We are excited to announce the early-stage release of our S. cerevisiae structural interactome mapping project. Using AlphaFold3 (AF3), w...
www.evocellnet.com
March 4, 2026 at 10:36 AM
We have started a project trying to predic the interactions/structures of all yeast protein pairs using an AlphaFold pooling approach. We are making the current dataset open and we welcome collaborations.
www.evocellnet.com/2026/03/mapp...
www.evocellnet.com/2026/03/mapp...
Reposted by Javi
Mammalian cells form hibernating disomes akin to those in bacterial cells - but connected via ribosomal RNA
www.science.org/doi/10.1126/...
co-first with: @andschwarz.bsky.social
with: @lea-dietrich.bsky.social, @sgiando.bsky.social, @erin-schuman.bsky.social and many more
🧵 0/6
#MolBio 🧪
www.science.org/doi/10.1126/...
co-first with: @andschwarz.bsky.social
with: @lea-dietrich.bsky.social, @sgiando.bsky.social, @erin-schuman.bsky.social and many more
🧵 0/6
#MolBio 🧪
February 19, 2026 at 7:09 PM
Mammalian cells form hibernating disomes akin to those in bacterial cells - but connected via ribosomal RNA
www.science.org/doi/10.1126/...
co-first with: @andschwarz.bsky.social
with: @lea-dietrich.bsky.social, @sgiando.bsky.social, @erin-schuman.bsky.social and many more
🧵 0/6
#MolBio 🧪
www.science.org/doi/10.1126/...
co-first with: @andschwarz.bsky.social
with: @lea-dietrich.bsky.social, @sgiando.bsky.social, @erin-schuman.bsky.social and many more
🧵 0/6
#MolBio 🧪
Reposted by Javi
Please share!
My group at @zmbp-tuebingen.bsky.social is offering a post-doctoral position (4 years). We look for a structural biologist with experience in Cryo-EM/Cryo-ET to investigate the mechanisms of host invasion by pathogenic fungi. Deadline February 28th!
uni-tuebingen.de/universitaet...
My group at @zmbp-tuebingen.bsky.social is offering a post-doctoral position (4 years). We look for a structural biologist with experience in Cryo-EM/Cryo-ET to investigate the mechanisms of host invasion by pathogenic fungi. Deadline February 28th!
uni-tuebingen.de/universitaet...
January 30, 2026 at 1:56 PM
Please share!
My group at @zmbp-tuebingen.bsky.social is offering a post-doctoral position (4 years). We look for a structural biologist with experience in Cryo-EM/Cryo-ET to investigate the mechanisms of host invasion by pathogenic fungi. Deadline February 28th!
uni-tuebingen.de/universitaet...
My group at @zmbp-tuebingen.bsky.social is offering a post-doctoral position (4 years). We look for a structural biologist with experience in Cryo-EM/Cryo-ET to investigate the mechanisms of host invasion by pathogenic fungi. Deadline February 28th!
uni-tuebingen.de/universitaet...
Reposted by Javi
LLOMe has long been used to study lysosomal damage, yet how it works has remained a mystery.
Using cryo-electron tomography, we show it forms amyloid structures inside lysosomes that mechanically rupture membranes – revealing a new paradigm for lysosomal failure.
🔗 doi.org/10.64898/202...
#CryoET
Using cryo-electron tomography, we show it forms amyloid structures inside lysosomes that mechanically rupture membranes – revealing a new paradigm for lysosomal failure.
🔗 doi.org/10.64898/202...
#CryoET
January 20, 2026 at 10:01 AM
LLOMe has long been used to study lysosomal damage, yet how it works has remained a mystery.
Using cryo-electron tomography, we show it forms amyloid structures inside lysosomes that mechanically rupture membranes – revealing a new paradigm for lysosomal failure.
🔗 doi.org/10.64898/202...
#CryoET
Using cryo-electron tomography, we show it forms amyloid structures inside lysosomes that mechanically rupture membranes – revealing a new paradigm for lysosomal failure.
🔗 doi.org/10.64898/202...
#CryoET
New preprint from the lab! 🆕
We combined in situ correlative cryo-ET 🥽🔬with multiscale simulations 🖥️⌨️ to study condensates inside yeast cells 🥼🧪
Link below 👇
We combined in situ correlative cryo-ET 🥽🔬with multiscale simulations 🖥️⌨️ to study condensates inside yeast cells 🥼🧪
Link below 👇
We are excited to share our new preprint which is now available to read on biorXiv: doi.org/10.64898/202... 🎉🎉🎉
January 13, 2026 at 9:36 PM
New preprint from the lab! 🆕
We combined in situ correlative cryo-ET 🥽🔬with multiscale simulations 🖥️⌨️ to study condensates inside yeast cells 🥼🧪
Link below 👇
We combined in situ correlative cryo-ET 🥽🔬with multiscale simulations 🖥️⌨️ to study condensates inside yeast cells 🥼🧪
Link below 👇
Reposted by Javi
Prohibitins aren’t hanging out just anywhere in the membrane — they prefer the 💁♀️💎✨VIP section💅🪩🥂
Lab all-star @mmedina300kv.bsky.social maps these microdomains using cryo-ET + surface morphometrics.
s/o to #teamtomo #cryoET co-authors
@hamid13r.bsky.social
@attychang.bsky.social
@baradlab.com
Lab all-star @mmedina300kv.bsky.social maps these microdomains using cryo-ET + surface morphometrics.
s/o to #teamtomo #cryoET co-authors
@hamid13r.bsky.social
@attychang.bsky.social
@baradlab.com
Prohibitin complexes associate with unique membrane microdomains in cells https://www.biorxiv.org/content/10.1101/2025.11.14.688579v1
November 17, 2025 at 12:22 AM
Prohibitins aren’t hanging out just anywhere in the membrane — they prefer the 💁♀️💎✨VIP section💅🪩🥂
Lab all-star @mmedina300kv.bsky.social maps these microdomains using cryo-ET + surface morphometrics.
s/o to #teamtomo #cryoET co-authors
@hamid13r.bsky.social
@attychang.bsky.social
@baradlab.com
Lab all-star @mmedina300kv.bsky.social maps these microdomains using cryo-ET + surface morphometrics.
s/o to #teamtomo #cryoET co-authors
@hamid13r.bsky.social
@attychang.bsky.social
@baradlab.com
Reposted by Javi
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/...
November 6, 2025 at 7:38 AM
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/...
Now that it’s November and Halloween is over, is it okay to put up the Christmas tree yet?
November 5, 2025 at 7:58 PM
Now that it’s November and Halloween is over, is it okay to put up the Christmas tree yet?
Reposted by Javi
Have you registered to the next EMBO Practical Course on In-situ structural biology by Cryo-FIB and Cryo-ET? 🧊 Join us in Frankfurt for hands-on training on cryo-techniques and networking with experts!
🔗 Apply by Dec 8, 2025: meetings.embo.org/event/26-in-...
📍 Frankfurt | 📆 April 12–20, 2026
🔗 Apply by Dec 8, 2025: meetings.embo.org/event/26-in-...
📍 Frankfurt | 📆 April 12–20, 2026
October 23, 2025 at 9:10 AM
Have you registered to the next EMBO Practical Course on In-situ structural biology by Cryo-FIB and Cryo-ET? 🧊 Join us in Frankfurt for hands-on training on cryo-techniques and networking with experts!
🔗 Apply by Dec 8, 2025: meetings.embo.org/event/26-in-...
📍 Frankfurt | 📆 April 12–20, 2026
🔗 Apply by Dec 8, 2025: meetings.embo.org/event/26-in-...
📍 Frankfurt | 📆 April 12–20, 2026
Reposted by Javi
Check out our preprint! With new molecular mechanisms, 140 subtomogram averages, and ~600 annotated cells under different conditions, we @embl.org were able to describe bacterial populations with in-cell #cryoET. And there’s a surprise at the end 🕵️
www.biorxiv.org/content/10.1...
#teamtomo
www.biorxiv.org/content/10.1...
#teamtomo
October 15, 2025 at 6:26 AM
Check out our preprint! With new molecular mechanisms, 140 subtomogram averages, and ~600 annotated cells under different conditions, we @embl.org were able to describe bacterial populations with in-cell #cryoET. And there’s a surprise at the end 🕵️
www.biorxiv.org/content/10.1...
#teamtomo
www.biorxiv.org/content/10.1...
#teamtomo