MLSB (in San Diego + Copenhagen)
@workshopmlsb.bsky.social
Machine Learning in Structural Biology workshop co-located with NeurIPS 2025 & at EurIPS 2025. Dec 7. San Diego, CA
http://mlsb.io
http://mlsb.io
Reminder that MLSB submissions for ✨BOTH✨ the Copenhagen and the San Diego MLSBs are due one week from now on October 1st 11:59pm AoE!
September 25, 2025 at 3:33 PM
Reminder that MLSB submissions for ✨BOTH✨ the Copenhagen and the San Diego MLSBs are due one week from now on October 1st 11:59pm AoE!
Reposted by MLSB (in San Diego + Copenhagen)
EuroMLSB at EurIPS is confirmed and the submission deadline is set to Oct 1st. This is **earlier than the EurIPS-suggested workshop deadline** for a reason: we have a shared submission process with MLSB in SanDiego for which the deadline is now also extended to Oct 1st!
🚨To accommodate the addition of EuroMLSB, we have extended the submission deadline to October 1, 2025 11:59pm AoE.
Find information on paper guidelines at mlsb.io. Submissions will be made through CMT.
Find information on paper guidelines at mlsb.io. Submissions will be made through CMT.
📢The submission portal for MLSB 2025 is live! Submissions are due September 26, 2025 11:59 pm AoE. cmt3.research.microsoft.com/MLSB2025
September 18, 2025 at 4:32 PM
EuroMLSB at EurIPS is confirmed and the submission deadline is set to Oct 1st. This is **earlier than the EurIPS-suggested workshop deadline** for a reason: we have a shared submission process with MLSB in SanDiego for which the deadline is now also extended to Oct 1st!
🚨To accommodate the addition of EuroMLSB, we have extended the submission deadline to October 1, 2025 11:59pm AoE.
Find information on paper guidelines at mlsb.io. Submissions will be made through CMT.
Find information on paper guidelines at mlsb.io. Submissions will be made through CMT.
📢The submission portal for MLSB 2025 is live! Submissions are due September 26, 2025 11:59 pm AoE. cmt3.research.microsoft.com/MLSB2025
September 17, 2025 at 2:59 PM
🚨To accommodate the addition of EuroMLSB, we have extended the submission deadline to October 1, 2025 11:59pm AoE.
Find information on paper guidelines at mlsb.io. Submissions will be made through CMT.
Find information on paper guidelines at mlsb.io. Submissions will be made through CMT.
You asked and we listened... @workshopmlsb.bsky.social is excited to be expanding to Copenhagen, DK at @euripsconf.bsky.social 🎉
Two workshops (San Diego & Copenhagen) will run concurrently to support broader attendance. You can indicate your location preference(s) in the submission portal💫
Two workshops (San Diego & Copenhagen) will run concurrently to support broader attendance. You can indicate your location preference(s) in the submission portal💫
September 12, 2025 at 12:43 PM
You asked and we listened... @workshopmlsb.bsky.social is excited to be expanding to Copenhagen, DK at @euripsconf.bsky.social 🎉
Two workshops (San Diego & Copenhagen) will run concurrently to support broader attendance. You can indicate your location preference(s) in the submission portal💫
Two workshops (San Diego & Copenhagen) will run concurrently to support broader attendance. You can indicate your location preference(s) in the submission portal💫
📢The submission portal for MLSB 2025 is live! Submissions are due September 26, 2025 11:59 pm AoE. cmt3.research.microsoft.com/MLSB2025
August 19, 2025 at 1:48 PM
📢The submission portal for MLSB 2025 is live! Submissions are due September 26, 2025 11:59 pm AoE. cmt3.research.microsoft.com/MLSB2025
Stay tuned for details on the 6th edition of MLSB, officially happening this December in downtown San Diego, CA!
The MLSB workshop will be in San Diego, CA (co-located with NeurIPS) this year for its 6th edition in December 🧬🔬
Stay tuned @workshopmlsb.bsky.social as we share details about the stellar lineup of speakers, the official call for papers, and other announcements!🌟
Stay tuned @workshopmlsb.bsky.social as we share details about the stellar lineup of speakers, the official call for papers, and other announcements!🌟
July 28, 2025 at 3:41 PM
Stay tuned for details on the 6th edition of MLSB, officially happening this December in downtown San Diego, CA!
Reposted by MLSB (in San Diego + Copenhagen)
Unfortunately, the MLSB Workshop @ NeurIPS (@workshopmlsb.bsky.social) was rejected this year.
Feedback from the deciding committee indicates it was a coin flip decision, with 283 proposals & a number related to “computational biology”
More on the future of MLSB soon…
Feedback from the deciding committee indicates it was a coin flip decision, with 283 proposals & a number related to “computational biology”
More on the future of MLSB soon…
July 7, 2025 at 2:21 PM
Unfortunately, the MLSB Workshop @ NeurIPS (@workshopmlsb.bsky.social) was rejected this year.
Feedback from the deciding committee indicates it was a coin flip decision, with 283 proposals & a number related to “computational biology”
More on the future of MLSB soon…
Feedback from the deciding committee indicates it was a coin flip decision, with 283 proposals & a number related to “computational biology”
More on the future of MLSB soon…
Interested in turning your workshop paper into a publication? MLSB has partnered with PRX Life to start a new special collection! Submission is free and open access -
Editorial: tinyurl.com/mlsbeditorial
Collection: go.aps.org/4fWvbHe
Submission: go.aps.org/3Znaux5
Editorial: tinyurl.com/mlsbeditorial
Collection: go.aps.org/4fWvbHe
Submission: go.aps.org/3Znaux5
December 16, 2024 at 6:47 AM
Interested in turning your workshop paper into a publication? MLSB has partnered with PRX Life to start a new special collection! Submission is free and open access -
Editorial: tinyurl.com/mlsbeditorial
Collection: go.aps.org/4fWvbHe
Submission: go.aps.org/3Znaux5
Editorial: tinyurl.com/mlsbeditorial
Collection: go.aps.org/4fWvbHe
Submission: go.aps.org/3Znaux5
Thank you to everyone who came to MLSB this year!!
We are collecting feedback in a short 2 minute survey (and more data means maybe next year we'll train a new model... or just get a bigger room 😄)
forms.gle/WHFNfvxVh3Qx...
We are collecting feedback in a short 2 minute survey (and more data means maybe next year we'll train a new model... or just get a bigger room 😄)
forms.gle/WHFNfvxVh3Qx...
MLSB Post-Conference Survey
Thank you for taking a few minutes to complete this survey about your experience at MLSB 2024 @ NeurIPS! Your feedback is valuable and ensures that we run a smooth workshop each year.
docs.google.com
December 16, 2024 at 6:32 AM
Thank you to everyone who came to MLSB this year!!
We are collecting feedback in a short 2 minute survey (and more data means maybe next year we'll train a new model... or just get a bigger room 😄)
forms.gle/WHFNfvxVh3Qx...
We are collecting feedback in a short 2 minute survey (and more data means maybe next year we'll train a new model... or just get a bigger room 😄)
forms.gle/WHFNfvxVh3Qx...
Time for the MLSB Panel 🎛️ We're welcoming @grocklin.bsky.social @noeliaferruz.bsky.social Erika Alden DeBenedictis @milot.bsky.social Jennifer Listgarten
to the panel, hosted by the wonderful @hkws.bsky.social . 🔥
to the panel, hosted by the wonderful @hkws.bsky.social . 🔥
December 15, 2024 at 11:32 PM
Time for the MLSB Panel 🎛️ We're welcoming @grocklin.bsky.social @noeliaferruz.bsky.social Erika Alden DeBenedictis @milot.bsky.social Jennifer Listgarten
to the panel, hosted by the wonderful @hkws.bsky.social . 🔥
to the panel, hosted by the wonderful @hkws.bsky.social . 🔥
Next up we're highlighting the results of the PINDER and PLINDER challenge.
December 15, 2024 at 11:07 PM
Next up we're highlighting the results of the PINDER and PLINDER challenge.
Next up - contributed talk.
HelixFlow, SE(3)–equivariant Full-atom Design of Peptides With Flow-matching Models
Xuezhi Xie, Pedro A Valiente, Jisun Kim, Jin Sub Lee, Philip Kim
HelixFlow, SE(3)–equivariant Full-atom Design of Peptides With Flow-matching Models
Xuezhi Xie, Pedro A Valiente, Jisun Kim, Jin Sub Lee, Philip Kim
December 15, 2024 at 10:37 PM
Next up - contributed talk.
HelixFlow, SE(3)–equivariant Full-atom Design of Peptides With Flow-matching Models
Xuezhi Xie, Pedro A Valiente, Jisun Kim, Jin Sub Lee, Philip Kim
HelixFlow, SE(3)–equivariant Full-atom Design of Peptides With Flow-matching Models
Xuezhi Xie, Pedro A Valiente, Jisun Kim, Jin Sub Lee, Philip Kim
Next up, contributed talk!
FlowPacker: protein side-chain packing with torsional flow matching
Jin Sub Lee, Philip Kim
FlowPacker: protein side-chain packing with torsional flow matching
Jin Sub Lee, Philip Kim
December 15, 2024 at 10:22 PM
Next up, contributed talk!
FlowPacker: protein side-chain packing with torsional flow matching
Jin Sub Lee, Philip Kim
FlowPacker: protein side-chain packing with torsional flow matching
Jin Sub Lee, Philip Kim
Next up - invited speaker!
Boltz-1: Democratizing Biomolecular Interaction Modeling
@jeremywohlwend.bsky.social
Boltz-1: Democratizing Biomolecular Interaction Modeling
@jeremywohlwend.bsky.social
December 15, 2024 at 10:03 PM
Next up - invited speaker!
Boltz-1: Democratizing Biomolecular Interaction Modeling
@jeremywohlwend.bsky.social
Boltz-1: Democratizing Biomolecular Interaction Modeling
@jeremywohlwend.bsky.social
Next up, invited speaker!
Challenges to metagenomic annotation with Foldseek and protein language models
@milot.bsky.social
Challenges to metagenomic annotation with Foldseek and protein language models
@milot.bsky.social
December 15, 2024 at 9:35 PM
Next up, invited speaker!
Challenges to metagenomic annotation with Foldseek and protein language models
@milot.bsky.social
Challenges to metagenomic annotation with Foldseek and protein language models
@milot.bsky.social
Next up - Contributed Talk
Improving Ab-Initio Cryo-EM Reconstruction with Semi-Amortized Pose Inference
Shayan Shekarforoush @davelindell.bsky.social @marcusabrubaker.bsky.social David Fleet
Improving Ab-Initio Cryo-EM Reconstruction with Semi-Amortized Pose Inference
Shayan Shekarforoush @davelindell.bsky.social @marcusabrubaker.bsky.social David Fleet
December 15, 2024 at 9:05 PM
Next up - Contributed Talk
Improving Ab-Initio Cryo-EM Reconstruction with Semi-Amortized Pose Inference
Shayan Shekarforoush @davelindell.bsky.social @marcusabrubaker.bsky.social David Fleet
Improving Ab-Initio Cryo-EM Reconstruction with Semi-Amortized Pose Inference
Shayan Shekarforoush @davelindell.bsky.social @marcusabrubaker.bsky.social David Fleet
Next up - Contributed Talk!
Generative modeling of protein ensembles guided by crystallographic electron densities
Sai Advaith Maddipatla · Nadav Sellam · @sankethvedula.bsky.social · Ailie Marx · Alex Bronstein
Generative modeling of protein ensembles guided by crystallographic electron densities
Sai Advaith Maddipatla · Nadav Sellam · @sankethvedula.bsky.social · Ailie Marx · Alex Bronstein
December 15, 2024 at 8:49 PM
Next up - Contributed Talk!
Generative modeling of protein ensembles guided by crystallographic electron densities
Sai Advaith Maddipatla · Nadav Sellam · @sankethvedula.bsky.social · Ailie Marx · Alex Bronstein
Generative modeling of protein ensembles guided by crystallographic electron densities
Sai Advaith Maddipatla · Nadav Sellam · @sankethvedula.bsky.social · Ailie Marx · Alex Bronstein
We're back from the break! The next talk is an invited speaker.
Protein-Protein Interactions in Synthetic Co-Evolution & Other Stories
Jennifer Listgarten
Protein-Protein Interactions in Synthetic Co-Evolution & Other Stories
Jennifer Listgarten
December 15, 2024 at 8:25 PM
We're back from the break! The next talk is an invited speaker.
Protein-Protein Interactions in Synthetic Co-Evolution & Other Stories
Jennifer Listgarten
Protein-Protein Interactions in Synthetic Co-Evolution & Other Stories
Jennifer Listgarten
Next up - Invited Speaker!
Learning the determinants of protein folding energy landscapes from large-scale experiments
@grocklin.bsky.social
Learning the determinants of protein folding energy landscapes from large-scale experiments
@grocklin.bsky.social
December 15, 2024 at 6:54 PM
Next up - Invited Speaker!
Learning the determinants of protein folding energy landscapes from large-scale experiments
@grocklin.bsky.social
Learning the determinants of protein folding energy landscapes from large-scale experiments
@grocklin.bsky.social
Next up - Contributed Talk!
Protein Language Model Fitness is a Matter of Preference
Cade Gordon @amyxlu.bsky.social Pieter Abbeel
Protein Language Model Fitness is a Matter of Preference
Cade Gordon @amyxlu.bsky.social Pieter Abbeel
December 15, 2024 at 6:40 PM
Next up - Contributed Talk!
Protein Language Model Fitness is a Matter of Preference
Cade Gordon @amyxlu.bsky.social Pieter Abbeel
Protein Language Model Fitness is a Matter of Preference
Cade Gordon @amyxlu.bsky.social Pieter Abbeel
Next up - Contributed Talk!
Controllable All-Atom Generation of Protein Sequence and Structure from Sequence-Only Inputs
@amyxlu.bsky.social Wilson Yang @kevinkaichuang.bsky.social Vladimir Gligorijevic @kyunghyuncho.bsky.social
Richard Bonneau Pieter Abbeel @ncfrey.bsky.social
Controllable All-Atom Generation of Protein Sequence and Structure from Sequence-Only Inputs
@amyxlu.bsky.social Wilson Yang @kevinkaichuang.bsky.social Vladimir Gligorijevic @kyunghyuncho.bsky.social
Richard Bonneau Pieter Abbeel @ncfrey.bsky.social
December 15, 2024 at 6:25 PM
Next up - Contributed Talk!
Controllable All-Atom Generation of Protein Sequence and Structure from Sequence-Only Inputs
@amyxlu.bsky.social Wilson Yang @kevinkaichuang.bsky.social Vladimir Gligorijevic @kyunghyuncho.bsky.social
Richard Bonneau Pieter Abbeel @ncfrey.bsky.social
Controllable All-Atom Generation of Protein Sequence and Structure from Sequence-Only Inputs
@amyxlu.bsky.social Wilson Yang @kevinkaichuang.bsky.social Vladimir Gligorijevic @kyunghyuncho.bsky.social
Richard Bonneau Pieter Abbeel @ncfrey.bsky.social
Next up - Invited Speaker!
How do we make the next PDB? Introducing Align’s Data Platform
Erika Alden DeBenedictis
How do we make the next PDB? Introducing Align’s Data Platform
Erika Alden DeBenedictis
December 15, 2024 at 5:52 PM
Next up - Invited Speaker!
How do we make the next PDB? Introducing Align’s Data Platform
Erika Alden DeBenedictis
How do we make the next PDB? Introducing Align’s Data Platform
Erika Alden DeBenedictis
Next up - Invited Speaker!
Biomolecular Structure Prediction with AlphaFold3
Josh Abramson @deepmind.google.web.brid.gy John Jumper Demis Hassabis and AlphaFold3 Team
Biomolecular Structure Prediction with AlphaFold3
Josh Abramson @deepmind.google.web.brid.gy John Jumper Demis Hassabis and AlphaFold3 Team
December 15, 2024 at 5:10 PM
Next up - Invited Speaker!
Biomolecular Structure Prediction with AlphaFold3
Josh Abramson @deepmind.google.web.brid.gy John Jumper Demis Hassabis and AlphaFold3 Team
Biomolecular Structure Prediction with AlphaFold3
Josh Abramson @deepmind.google.web.brid.gy John Jumper Demis Hassabis and AlphaFold3 Team
Next up - Contributed Talk!
The OMG dataset: An Open MetaGenomic corpus for mixed-modality genomic language modeling
Andre Cornman @microyunha.bsky.social Jacob West-Roberts @martinberan.bsky.social @sokrypton.org @simrouxvirus.bsky.social @apcamargo.bsky.social @milot.bsky.social
The OMG dataset: An Open MetaGenomic corpus for mixed-modality genomic language modeling
Andre Cornman @microyunha.bsky.social Jacob West-Roberts @martinberan.bsky.social @sokrypton.org @simrouxvirus.bsky.social @apcamargo.bsky.social @milot.bsky.social
December 15, 2024 at 4:58 PM
Next up - Contributed Talk!
The OMG dataset: An Open MetaGenomic corpus for mixed-modality genomic language modeling
Andre Cornman @microyunha.bsky.social Jacob West-Roberts @martinberan.bsky.social @sokrypton.org @simrouxvirus.bsky.social @apcamargo.bsky.social @milot.bsky.social
The OMG dataset: An Open MetaGenomic corpus for mixed-modality genomic language modeling
Andre Cornman @microyunha.bsky.social Jacob West-Roberts @martinberan.bsky.social @sokrypton.org @simrouxvirus.bsky.social @apcamargo.bsky.social @milot.bsky.social
December 15, 2024 at 4:35 PM