Boston Protein Design and Modeling Club
@bpdmc.org
We are a global community of computational protein engineers and modelers from both academia and industry.
An @omsf.io project organized by @cdbahl.com, @sokrypton.org, and @nickpolizzi.bsky.social
https://bpdmc.org
An @omsf.io project organized by @cdbahl.com, @sokrypton.org, and @nickpolizzi.bsky.social
https://bpdmc.org
We can't wait until Wednesday, November 19th 2025 to arrive because we have @ginaelnesr.bsky.social from @possuhuanglab.bsky.social speaking at 7pm EST in Room 6055, Longwood Center, @danafarber.bsky.social
"Learning millisecond protein dynamics from what is missing in NMR spectra"
bpdmc.org
"Learning millisecond protein dynamics from what is missing in NMR spectra"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
November 12, 2025 at 6:18 PM
We can't wait until Wednesday, November 19th 2025 to arrive because we have @ginaelnesr.bsky.social from @possuhuanglab.bsky.social speaking at 7pm EST in Room 6055, Longwood Center, @danafarber.bsky.social
"Learning millisecond protein dynamics from what is missing in NMR spectra"
bpdmc.org
"Learning millisecond protein dynamics from what is missing in NMR spectra"
bpdmc.org
Reposted by Boston Protein Design and Modeling Club
If you missed the amazing seminar by @marinkazitnik.bsky.social last month, the recording is now available! 👇
youtu.be/mkTgopOhSR4
youtu.be/mkTgopOhSR4
Empowering Biomedical Discovery with “AI Scientists”
YouTube video by Boston Protein Design and Modeling Club
youtu.be
November 3, 2025 at 9:12 PM
If you missed the amazing seminar by @marinkazitnik.bsky.social last month, the recording is now available! 👇
youtu.be/mkTgopOhSR4
youtu.be/mkTgopOhSR4
have no fear if you weren't in the packed lecture hall at @mit.edu last week for @grocklin.bsky.social's brilliant seminar - you can check out the recording 👇
youtu.be/KKXe8a_h88c
youtu.be/KKXe8a_h88c
Predicting protein folding stability and aggregation propensity using large-scale experiments
YouTube video by Boston Protein Design and Modeling Club
youtu.be
October 27, 2025 at 7:01 PM
have no fear if you weren't in the packed lecture hall at @mit.edu last week for @grocklin.bsky.social's brilliant seminar - you can check out the recording 👇
youtu.be/KKXe8a_h88c
youtu.be/KKXe8a_h88c
thanks everyone who packed the house tonight at @mit.edu for an incredible seminar by @grocklin.bsky.social!
October 23, 2025 at 1:38 AM
thanks everyone who packed the house tonight at @mit.edu for an incredible seminar by @grocklin.bsky.social!
quick reminder to come see @grocklin.bsky.social tonight at @mit.edu!
Join us in Room 181, Building 68 @mit.edu on October 22nd 2025 @ 7pm EDT to see @grocklin.bsky.social present a mind blowing amount of data and learn what becomes possible at this scale
"Predicting protein folding stability and aggregation propensity using large-scale experiments"
bpdmc.org
"Predicting protein folding stability and aggregation propensity using large-scale experiments"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
October 22, 2025 at 2:55 PM
quick reminder to come see @grocklin.bsky.social tonight at @mit.edu!
Join us in Room 181, Building 68 @mit.edu on October 22nd 2025 @ 7pm EDT to see @grocklin.bsky.social present a mind blowing amount of data and learn what becomes possible at this scale
"Predicting protein folding stability and aggregation propensity using large-scale experiments"
bpdmc.org
"Predicting protein folding stability and aggregation propensity using large-scale experiments"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
October 17, 2025 at 8:27 PM
Join us in Room 181, Building 68 @mit.edu on October 22nd 2025 @ 7pm EDT to see @grocklin.bsky.social present a mind blowing amount of data and learn what becomes possible at this scale
"Predicting protein folding stability and aggregation propensity using large-scale experiments"
bpdmc.org
"Predicting protein folding stability and aggregation propensity using large-scale experiments"
bpdmc.org
quick reminder to join us at @danafarber.bsky.social tonight for a spectacular seminar by @marinkazitnik.bsky.social!
Our September seminar was delayed a couple weeks, but our speaker @marinkazitnik.bsky.social is well worth the wait.
Join us this Wednesday, October 1st 2025 at 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social
"Empowering Biomedical Discovery with AI Scientists”
bpdmc.org
Join us this Wednesday, October 1st 2025 at 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social
"Empowering Biomedical Discovery with AI Scientists”
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
October 1, 2025 at 12:35 PM
quick reminder to join us at @danafarber.bsky.social tonight for a spectacular seminar by @marinkazitnik.bsky.social!
Our September seminar was delayed a couple weeks, but our speaker @marinkazitnik.bsky.social is well worth the wait.
Join us this Wednesday, October 1st 2025 at 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social
"Empowering Biomedical Discovery with AI Scientists”
bpdmc.org
Join us this Wednesday, October 1st 2025 at 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social
"Empowering Biomedical Discovery with AI Scientists”
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
September 26, 2025 at 1:54 PM
Our September seminar was delayed a couple weeks, but our speaker @marinkazitnik.bsky.social is well worth the wait.
Join us this Wednesday, October 1st 2025 at 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social
"Empowering Biomedical Discovery with AI Scientists”
bpdmc.org
Join us this Wednesday, October 1st 2025 at 7pm EDT in Room 6055, Longwood Center, @danafarber.bsky.social
"Empowering Biomedical Discovery with AI Scientists”
bpdmc.org
If you missed seeing @colby.tuple.xyz's excellent talk back in July, you can now check out the recording 👇 youtu.be/k63Xh-oJMs0
Model. Package. Deploy. Repeat: A DevOps Approach to Biomolecular Scalability
YouTube video by Boston Protein Design and Modeling Club
youtu.be
September 9, 2025 at 9:53 PM
If you missed seeing @colby.tuple.xyz's excellent talk back in July, you can now check out the recording 👇 youtu.be/k63Xh-oJMs0
Have no fear if you weren't in the packed audience this week for @martinpacesa.bsky.social's awesome seminar, because you can check out the recording 👇
youtu.be/qQihl6If9vU
youtu.be/qQihl6If9vU
BindCraft: one-shot design of functional protein binders
YouTube video by Boston Protein Design and Modeling Club
youtu.be
August 15, 2025 at 8:56 PM
Have no fear if you weren't in the packed audience this week for @martinpacesa.bsky.social's awesome seminar, because you can check out the recording 👇
youtu.be/qQihl6If9vU
youtu.be/qQihl6If9vU
Fun fact: #bindcraft evolved from a binder design tutorial originally developed for BPDMC!
Come see @martinpacesa.bsky.social tonight at 7pm EDT in Room 181, Building 68, @mit.edu
"BindCraft: one-shot design of functional protein binders"
bpdmc.org
Come see @martinpacesa.bsky.social tonight at 7pm EDT in Room 181, Building 68, @mit.edu
"BindCraft: one-shot design of functional protein binders"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
August 13, 2025 at 1:52 PM
Fun fact: #bindcraft evolved from a binder design tutorial originally developed for BPDMC!
Come see @martinpacesa.bsky.social tonight at 7pm EDT in Room 181, Building 68, @mit.edu
"BindCraft: one-shot design of functional protein binders"
bpdmc.org
Come see @martinpacesa.bsky.social tonight at 7pm EDT in Room 181, Building 68, @mit.edu
"BindCraft: one-shot design of functional protein binders"
bpdmc.org
quick reminder to join us tonight at @harvardmed.bsky.social for a great talk by Colby Ford @colby.tuple.xyz
Come learn about how to run the computational infrastructure that's powering the protein design revolution
July 9th 2025 at 7pm EDT in TMEC250 @harvardmed.bsky.social
"Model. Package. Deploy. Repeat: A DevOps Approach to Biomolecular Scalability"
Colby Ford @colby.tuple.xyz
bpdmc.org
July 9th 2025 at 7pm EDT in TMEC250 @harvardmed.bsky.social
"Model. Package. Deploy. Repeat: A DevOps Approach to Biomolecular Scalability"
Colby Ford @colby.tuple.xyz
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
July 9, 2025 at 1:01 PM
quick reminder to join us tonight at @harvardmed.bsky.social for a great talk by Colby Ford @colby.tuple.xyz
Come learn about how to run the computational infrastructure that's powering the protein design revolution
July 9th 2025 at 7pm EDT in TMEC250 @harvardmed.bsky.social
"Model. Package. Deploy. Repeat: A DevOps Approach to Biomolecular Scalability"
Colby Ford @colby.tuple.xyz
bpdmc.org
July 9th 2025 at 7pm EDT in TMEC250 @harvardmed.bsky.social
"Model. Package. Deploy. Repeat: A DevOps Approach to Biomolecular Scalability"
Colby Ford @colby.tuple.xyz
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
July 2, 2025 at 10:07 PM
Come learn about how to run the computational infrastructure that's powering the protein design revolution
July 9th 2025 at 7pm EDT in TMEC250 @harvardmed.bsky.social
"Model. Package. Deploy. Repeat: A DevOps Approach to Biomolecular Scalability"
Colby Ford @colby.tuple.xyz
bpdmc.org
July 9th 2025 at 7pm EDT in TMEC250 @harvardmed.bsky.social
"Model. Package. Deploy. Repeat: A DevOps Approach to Biomolecular Scalability"
Colby Ford @colby.tuple.xyz
bpdmc.org
Don't fret if you missed Silvi Rouskin's brilliant and engaging talk on #RNA structure last night - you can check out the recording 👇
youtu.be/oS_Cb-YMymw
youtu.be/oS_Cb-YMymw
RNA Function, Design, and Modeling
YouTube video by Boston Protein Design and Modeling Club
youtu.be
June 12, 2025 at 4:09 PM
Don't fret if you missed Silvi Rouskin's brilliant and engaging talk on #RNA structure last night - you can check out the recording 👇
youtu.be/oS_Cb-YMymw
youtu.be/oS_Cb-YMymw
Protein isn't the only amazing macromolecule that folds into 3D shapes - come see Silvi Rouskin in Room 181, Building 68 at MIT on Wednesday, June 11th at 7pm EDT to learn more about #RNA structure design and modeling!
"RNA Function, Design, and Modeling"
bpdmc.org
"RNA Function, Design, and Modeling"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
June 5, 2025 at 1:31 PM
If you missed out on Sarel Fleishman's extraordinary talk last night, have no fear - you can check out the recording 👇
youtu.be/2aaWh8yVq8U
youtu.be/2aaWh8yVq8U
Designing new and improved functions in natural protein folds
YouTube video by Boston Protein Design and Modeling Club
youtu.be
May 16, 2025 at 2:34 PM
If you missed out on Sarel Fleishman's extraordinary talk last night, have no fear - you can check out the recording 👇
youtu.be/2aaWh8yVq8U
youtu.be/2aaWh8yVq8U
quick reminder to come join us tonight at 7pm EDT to see Sarel Fleishman!
Our speaker next week is an amazing scientist from out of town, and this is one that you won't want to miss!
Thursday, May 15th, 7pm EDT
Cannon Room, Building C, @harvardmed.bsky.social
Sarel Fleishman
www.fleishmanlab.org
"Designing new and improved functions in natural protein folds"
bpdmc.org
Thursday, May 15th, 7pm EDT
Cannon Room, Building C, @harvardmed.bsky.social
Sarel Fleishman
www.fleishmanlab.org
"Designing new and improved functions in natural protein folds"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
May 15, 2025 at 12:31 PM
quick reminder to come join us tonight at 7pm EDT to see Sarel Fleishman!
Our speaker next week is an amazing scientist from out of town, and this is one that you won't want to miss!
Thursday, May 15th, 7pm EDT
Cannon Room, Building C, @harvardmed.bsky.social
Sarel Fleishman
www.fleishmanlab.org
"Designing new and improved functions in natural protein folds"
bpdmc.org
Thursday, May 15th, 7pm EDT
Cannon Room, Building C, @harvardmed.bsky.social
Sarel Fleishman
www.fleishmanlab.org
"Designing new and improved functions in natural protein folds"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
May 9, 2025 at 3:08 PM
Our speaker next week is an amazing scientist from out of town, and this is one that you won't want to miss!
Thursday, May 15th, 7pm EDT
Cannon Room, Building C, @harvardmed.bsky.social
Sarel Fleishman
www.fleishmanlab.org
"Designing new and improved functions in natural protein folds"
bpdmc.org
Thursday, May 15th, 7pm EDT
Cannon Room, Building C, @harvardmed.bsky.social
Sarel Fleishman
www.fleishmanlab.org
"Designing new and improved functions in natural protein folds"
bpdmc.org
in case you missed the superb seminar that Ben Fry gave back in January, you can now check out the recording youtu.be/IgFgAYQrke4
and the preprint www.biorxiv.org/content/10.1...
and the preprint www.biorxiv.org/content/10.1...
Design of small molecule binding proteins using deep learning
YouTube video by Boston Protein Design and Modeling Club
youtu.be
May 3, 2025 at 2:07 PM
in case you missed the superb seminar that Ben Fry gave back in January, you can now check out the recording youtu.be/IgFgAYQrke4
and the preprint www.biorxiv.org/content/10.1...
and the preprint www.biorxiv.org/content/10.1...
Reposted by Boston Protein Design and Modeling Club
Super excited to share a new preprint from our lab on design of small-molecule binding proteins using neural networks! The paper has a bit of everything. A new graph neural network, new design algorithms, and experimental validation. www.biorxiv.org/content/10.1...
🧵🧪
🧵🧪
Zero-shot design of drug-binding proteins via neural selection-expansion
Computational design of molecular recognition remains challenging despite advances in deep learning. The design of proteins that bind to small molecules has been particularly difficult because it requ...
www.biorxiv.org
April 28, 2025 at 3:22 PM
Super excited to share a new preprint from our lab on design of small-molecule binding proteins using neural networks! The paper has a bit of everything. A new graph neural network, new design algorithms, and experimental validation. www.biorxiv.org/content/10.1...
🧵🧪
🧵🧪
If you missed @lindseyguan.bsky.social's outstanding talk last week, you can check out the recording 👇
youtu.be/R87pmoB3QF0
youtu.be/R87pmoB3QF0
Interpreting state-of-the-art structure predictors for protein-peptide complexes
YouTube video by Boston Protein Design and Modeling Club
youtu.be
April 18, 2025 at 8:30 PM
If you missed @lindseyguan.bsky.social's outstanding talk last week, you can check out the recording 👇
youtu.be/R87pmoB3QF0
youtu.be/R87pmoB3QF0
We're so excited - our upcoming seminar will be by Lindsey Guan on Wednesday, April 9th 2025 starting at 7pm EDT in Room 181, Building 68, MIT @mitofficial.bsky.social
"Interpreting state-of-the-art structure predictors for protein-peptide complexes"
bpdmc.org
"Interpreting state-of-the-art structure predictors for protein-peptide complexes"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
April 5, 2025 at 6:06 PM
We're so excited - our upcoming seminar will be by Lindsey Guan on Wednesday, April 9th 2025 starting at 7pm EDT in Room 181, Building 68, MIT @mitofficial.bsky.social
"Interpreting state-of-the-art structure predictors for protein-peptide complexes"
bpdmc.org
"Interpreting state-of-the-art structure predictors for protein-peptide complexes"
bpdmc.org
if you missed seeing Seth Fraden's great seminar last night, have no fear - you can check out the recording: youtu.be/zyJmWLzkh7Q
From DNA Origami to Protein Design: Symmetry-Guided Principles Across Scales
YouTube video by Boston Protein Design and Modeling Club
youtu.be
March 13, 2025 at 8:42 PM
if you missed seeing Seth Fraden's great seminar last night, have no fear - you can check out the recording: youtu.be/zyJmWLzkh7Q
quick reminder - don't miss out on an awesome seminar by Seth Fraden tonight!
As usual, we've got another exciting seminar coming up!
Come see Seth Fraden on Wednesday, March 12th 2025 at 7pm EDT in the Cannon Room, Building C, Harvard Medical School
"From DNA Origami to Protein Design: Symmetry-Guided Principles Across Scales"
bpdmc.org
Come see Seth Fraden on Wednesday, March 12th 2025 at 7pm EDT in the Cannon Room, Building C, Harvard Medical School
"From DNA Origami to Protein Design: Symmetry-Guided Principles Across Scales"
bpdmc.org
schedule
introduction and membership
Boston Protein Design and Modeling Club (BPDMC) is a community of computational protein engineers and modelers from both academia and industry. While we are based in Boston...
bpdmc.org
March 12, 2025 at 12:24 PM
quick reminder - don't miss out on an awesome seminar by Seth Fraden tonight!