Kevin Kaichuang Yang

发表

Exploring evolution-based & -free protein language models as protein function predictors

Fajie Yuan, Hongya Wang, Fusong Ju, 2022, ArXiv.

Deep self-supervised learning for biosynthetic gene cluster detection and product classification

Lorin Crawford, Nicholas Bhattacharya, Carolina Rios-Martinez, 2022, bioRxiv.

Learned protein embeddings for machine learning

Zachary Wu, Frances H. Arnold, Kevin K. Yang, 2018, Bioinform..

Convolutions are competitive with transformers for protein sequence pretraining

Alex X. Lu, Nicoló Fusi, Kevin Kaichuang Yang, 2022, bioRxiv.

Exploring evolution-based & -free protein language models as protein function predictors

Fajie Yuan, Hongya Wang, Fusong Ju, 2022, ArXiv.

Signal Peptides Generated by Attention-Based Neural Networks.

F. Arnold, Zachary Wu, M. Liszka, 2020, ACS synthetic biology.

Exploring evolution-aware & -free protein language models as protein function predictors

Fajie Yuan, Hongya Wang, Fusong Ju, 2022, NeurIPS.

Learned Embeddings from Deep Learning to Visualize and Predict Protein Sets

Kevin K. Yang, Amy X. Lu, B. Rost, 2021, Current protocols.

Protein structure generation via folding diffusion

Rianne van den Berg, Alex X. Lu, James Zou, 2022, Nature communications.

Evolutionary velocity with protein language models

P. S. Kim, B. Hie, Peter S. Kim, 2021, bioRxiv.

Machine-learning-guided directed evolution for protein engineering

Kevin K. Yang, F. Arnold, Zachary Wu, 2018, Nature Methods.

Machine learning modeling of family wide enzyme-substrate specificity screens pdf

Connor W. Coley, Samuel Goldman, Ria Das, 2021, PLoS Comput. Biol..

Machine learning in protein engineering

Zachary Wu, Frances H. Arnold, Kevin K. Yang, 2018, 1811.10775.

A topological data analytic approach for discovering biophysical signatures in protein dynamics

S. Mukherjee, Lorin Crawford, B. Rubenstein, 2021, bioRxiv.

Convolutions are competitive with transformers for protein sequence pretraining

Alex X. Lu, Nicoló Fusi, Kevin Kaichuang Yang, 2024, bioRxiv.

Masked inverse folding with sequence transfer for protein representation learning

N. Zanichelli, Hugh Yeh, Kevin Kaichuang Yang, 2022, bioRxiv.

Protein sequence design with deep generative models

Kadina E. Johnston, F. Arnold, Zachary Wu, 2021, Current opinion in chemical biology.

Computational Scoring and Experimental Evaluation of Enzymes Generated by Neural Networks

Xiaozhi Fu, Kevin Kaichuang Yang, Aleksej Zelezniak, 2023, bioRxiv.

Evolutionary velocity with protein language models predicts evolutionary dynamics of diverse proteins.

B. Hie, Peter S. Kim, Kevin Kaichuang Yang, 2022, Cell systems.

FLIP: Benchmark tasks in fitness landscape inference for proteins

Kevin K. Yang, Bruce J. Wittmann, Kadina E. Johnston, 2021, bioRxiv.

Machine-learning-guided directed evolution for protein engineering

F. Arnold, Zachary Wu, Kevin Kaichuang Yang, 2018, Nature Methods.

Learned protein embeddings for machine learning

Zachary Wu, Frances H. Arnold, Kevin K. Yang, 2018, Bioinformatics.

The Generation of Thermostable Fungal Laccase Chimeras by SCHEMA-RASPP Structure-Guided Recombination in Vivo.

Austin J. Rice, M. Alcalde, T. Tron, 2019, ACS synthetic biology.

Machine learning-guided channelrhodopsin engineering enables minimally-invasive optogenetics

Frances H. Arnold, Viviana Gradinaru, Kevin K. Yang, 2019, Nature Methods.

Randomized gates eliminate bias in sort‐seq assays

B. Trippe, Lorin Crawford, Nicholas Bhattacharya, 2022, bioRxiv.

Batched Stochastic Bayesian Optimization via Combinatorial Constraints Design pdf

Yisong Yue, Yuxin Chen, Kevin K. Yang, 2019, AISTATS.

Machine learning to design integral membrane channelrhodopsins for efficient eukaryotic expression and plasma membrane localization

Frances H. Arnold, Viviana Gradinaru, Kevin K. Yang, 2017, PLoS Comput. Biol..

Computational Scoring and Experimental Evaluation of Enzymes Generated by Neural Networks

Xiaozhi Fu, Kevin Kaichuang Yang, Aleksej Zelezniak, 2023, bioRxiv.

Structure-guided SCHEMA recombination generates diverse chimeric channelrhodopsins

Frances H. Arnold, Xiaozhe Ding, Viviana Gradinaru, 2017, Proceedings of the National Academy of Sciences.

Masked Inverse Folding with Sequence Transfer for Protein Representation Learning

N. Zanichelli, Hugh Yeh, Kevin Kaichuang Yang, 2023, bioRxiv.

SEQUENCE VS. STRUCTURE: DELVING DEEP INTO DATA-DRIVEN PROTEIN FUNCTION PREDICTION

G. Guo, Fajie Yuan, Hanwen Du, 2023, bioRxiv.

Adaptive machine learning for protein engineering pdf

Kevin K. Yang, Brian L. Hie, B. Hie, 2021, Current opinion in structural biology.

Benchmarking Uncertainty Quantification for Protein Engineering

Kevin Kaichuang Yang, Ava P. Amini, Kevin P. Greenman, 2023, bioRxiv.

Protein generation with evolutionary diffusion: sequence is all you need

Kevin Kaichuang Yang, Ava P. Amini, Nicolo Fusi, 2023, bioRxiv.