Dustin Britton

Top talent animal crossing fisherino 🐠 END TO INEQUALITY!!!!✊

[Biology+AI Daily @BiologyAIDaily]

Beyond native sequence recovery: Improved modeling of the sequence-energy landscape of protein structures

1. A new study by Foster Birnbaum and Amy E. Keating challenges the conventional approach of optimizing protein sequence design models solely for native sequence recovery (NSR). They demonstrate that focusing on NSR may not always align with more critical metrics like sequence-structure compatibility and mutation energy prediction.

2. The authors introduce PottsMPNN, a novel model that learns a Potts energy function from protein backbones. This approach reduces NSR but significantly improves sequence generation and energy prediction capabilities, highlighting the limitations of using NSR as the primary optimization metric.

3. Training with noisy backbone structures and multiple sequence alignments (MSAs) further enhances model performance. These strategies prevent overfitting to NSR and improve the model's ability to generate sequences that fold into desired structures and predict mutation effects accurately.

4. The study emphasizes the importance of capturing pairwise interactions in protein sequences through the Potts model. This method allows PottsMPNN to outperform existing models in predicting the energetic effects of mutations and optimizing sequence-structure compatibility.

5. The results suggest that future protein design models should focus on more biologically relevant objectives rather than solely maximizing NSR. This shift in focus could lead to more effective and versatile protein design tools with broader applications in biotechnology and medicine.

📜Paper: https://t.co/NSyHNpQzg1
💻Code: https://t.co/4xU8woAOLH
#ProteinDesign #MachineLearning #ComputationalBiology #PottsModel #ProteinEngineering

[Dr. Jin Kim Montclare @jkmontclare]

Congrats to @MontclareLabs ⁦@dustygr8britton⁩ Hao-Wei Shih, Chengliang Liu, Sihan Jia & collabs Min-Woo Kim, Mia Klopfenstein from @LeeLab_nyu, Suman Maity from @Atanu_Acharya1 Lab on getting our photoconductive proteins out! https://t.co/dQ2CLMcIp8 https://t.co/dQ2CLMcIp8

[Dr. Jin Kim Montclare @jkmontclare]

Wonderful to collaborate with @SyracuseU @atanu_acharya1 & @nyuniversity @leelab_nyu! Thanks to @MontclareLabs @dustygr8britton for leading this effort on making photoconductive proteins! #collaboration #bioelectronics #biomaterials

[Dustin Britton @dustygr8britton]

@DjokerNole I’ve tried really hard to defend you throughout the years but c’mon bro

[Robert F. Kennedy Jr @RobertKennedyJr]

Novak Djokovic. First in tennis. First in integrity. First in courage. Guess who won this match?

[Doris Tsao @doristsao]

I, and every scientist I've talked to, believe the end result of this devastating cut will be that Universities will simply pass on the buck to investigators. Many of us fervently agree that university administrations & bureaucracy should be downsized and reformed. This maneuver is going to do nothing to actually instigate that change, it is simply going to result in a giant DIRECT cut to biomedical science in this country that is going to cripple science, lead to layoffs of hardworking students and postdocs with big dreams who are the country's future, and destroy this country's scientific pre-eminence. I personally find it hard to fathom how Elon Musk and pals, who clearly understand the value and beauty of science deeply, could not see this endgame and...hesitate. This is matricide. @shaunmmaguire @elonmusk

[Dr. Jin Kim Montclare @jkmontclare]

Congrats to @MontclareLabs @dustygr8britton, @JonasunSun & our @DowNewsroom collaborators Hammad Faizi, Ligeng Yin & Wei Gao on our paper "Recombinant Fibrous Protein Gels as Rheological Modifiers in Skin Ointments"! https://t.co/byp6CORKGM #NSFfunded

[Dr. Jin Kim Montclare @jkmontclare]

Congrats to @MontclareLabs Jacob, @dustygr8britton, @StanleyChu91, Maria, Jason & Ashwitha & collaborators Leif, @dougrenfrew, @RichBonneauNYC on our paper entitled "Supercharged Phosphotriesterase for improved Paraoxon activity" !
#NIHfunded https://t.co/jnAo1rlP1t

[Dr. Jin Kim Montclare @jkmontclare]

This highlights 2 papers on targeting & treating cancer led by @MontclareLabs ⁦@dustygr8britton⁩ & with the aid of our ⁦@nyugrossman colleagues Youssef Wadghiri & Bob Schneider!
Cutting-edge cancer treatments research promises more effective https://t.co/IfYcwXuRnx

[Dr. Jin Kim Montclare @jkmontclare]

Official @nyutandon @nyuniversity #PhD hooding ceremony to honor Dr. @dustygr8britton! Congratulations! #phd19 #phdone #congratagrad

[Dr. Jin Kim Montclare @jkmontclare]

Congratulations to @MontclareLabs @jbkronenberg Jason C, Maria K, @dustygr8britton & our @CUNY collaborators Yeojin J, Seungri K, Xi Chen & Raymond Tu for getting our paper on Water Responsivene Protein Block Copolymers out! https://t.co/Hqhswklnw1 #welldone #biomaterials

[Dr. Jin Kim Montclare @jkmontclare]

Congratulations to @MontclareLabs @dustygr8britton, Andrew, Chengliang, Heather, Jakub, Sihan, Yingxin, Deven & our @nyugrossman collaborators Youssef, Bob, Olga, Orin, Neelam, Orlando & Yan for getting our paper on engineered coiled-coil HIF1alpha out! https://t.co/dHHMvHm2gY

[Dr. Jin Kim Montclare @jkmontclare]

Congrats to @MontclareLabs @dustygr8britton, @JonasunSun & @FlatironCCB collaborator @dougrenfrew on their paper entitled, "Design of Coiled-coil Protein Nanostructures for Therapeutics and Drug Delivery" being published! Check it out here: https://t.co/aD9RlQez1v
#welldone

[Dr. Jin Kim Montclare @jkmontclare]

Please join me in congratulating Dr. @dustygr8britton for successfully defending his #PhD! It has been a very productive and fantastic scientific journey in #biomaterials & #biocatalysis! #welldone #phd19 #phdone #cheme

[Dr. Jin Kim Montclare @jkmontclare]

Congratulations to @MontclareLabs @dustygr8britton, Jakub Legocki, Deven Paul, Yingxin Xiao & @nyulangone collaborators Bob Schneider & Youssef Wadghiri and their team for getting our paper on #biomaterials to treat #cancer out! Check it out https://t.co/5aZLELZcGk! #NSFfunded

[Dr. Jin Kim Montclare @jkmontclare]

Congratulations to @MontclareLabs @dustygr8britton, Cheng Liu, Yingxin Xiao, Sihan Jia, Jakub Legocki & Jacob Kronenberg for getting our paper on cutinases for polymer degradation out! Thanks to @UD_CPI & @UD_CHARM. For details check out https://t.co/SkA0P7xbfo! #biocatalysis

[Dr. Jin Kim Montclare @jkmontclare]

The research paper that this highlights was led by @MontclareLabs #phd extraordinaire @dustygr8britton and started out during the pandemic as we were trying to figure how we could help combat #COVID19! Check it out! #nyutandonmade #lablife #phdlife
https://t.co/d7JJkzcqF7

[Dr. Jin Kim Montclare @jkmontclare]

Congrats to @MontclareLabs @dustygr8britton , Chengliang, Sihan, Deven, Jakub, Yongxin & @nyulangone collaborators Xiang-Peng Kong, Xunqing Jiang for getting our paper on Dual coiled-coil protein domian mimic and drug delivery vehicle for SARS-CoV-2 out! https://t.co/odjfinTsDo

[Dustin Britton @dustygr8britton]

@leelab_nyu @nyumdi Happy birthday!

[Dr. Jin Kim Montclare @jkmontclare]

The two research papers that this highlights was led by @MontclareLabs #phd extraordinaire @dustygr8britton! Check it out! #nyutandonmade #biomaterials #lablife #phdlife https://t.co/zoJFdWEBDy

[Dustin Britton @dustygr8britton]

@BenjoCamp Np np np

[Dr. Jin Kim Montclare @jkmontclare]

Congrats to @MontclareLabs @dustygr8britton, Jakub, Yingxin, Michael, Sihan, Farbod, Luc, @Alex_J_Pak @ColoradoStateU, Lin from @BrookhavenLab, Zihan, @DarrinPochan from @UDelaware, Michael from @nyugrossman @dougrenfrew @RichBonneauNYC on a new paper! https://t.co/butmwUI9qM