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Fast differentiable DNA and protein sequence optimization for molecular
  design
v1v2 (latest)

Fast differentiable DNA and protein sequence optimization for molecular design

22 May 2020
Johannes Linder
Georg Seelig
ArXiv (abs)PDFHTML

Papers citing "Fast differentiable DNA and protein sequence optimization for molecular design"

10 / 10 papers shown
RNAGenScape: Property-Guided, Optimized Generation of mRNA Sequences with Manifold Langevin Dynamics
RNAGenScape: Property-Guided, Optimized Generation of mRNA Sequences with Manifold Langevin Dynamics
Danqi Liao
Chen Liu
Xingzhi Sun
Dié Tang
Haochen Wang
...
Srikar Krishna Gopinath
Haejeong Lee
Ethan C. Strayer
Antonio J. Giraldez
Smita Krishnaswamy
198
1
0
14 Oct 2025
Regulatory DNA sequence Design with Reinforcement Learning
Regulatory DNA sequence Design with Reinforcement LearningInternational Conference on Learning Representations (ICLR), 2025
Zhao-Qing Yang
Fuchun Sun
Chuan Cao
Ji-Rong Wen
359
8
0
11 Mar 2025
Semantically Rich Local Dataset Generation for Explainable AI in
  Genomics
Semantically Rich Local Dataset Generation for Explainable AI in Genomics
Pedro Barbosa
Rosina Savisaar
Alcides Fonseca
359
0
0
03 Jul 2024
Using GNN property predictors as molecule generators
Using GNN property predictors as molecule generators
Felix Therrien
Edward H. Sargent
Oleksandr Voznyy
225
13
0
05 Jun 2024
Bridging Model-Based Optimization and Generative Modeling via
  Conservative Fine-Tuning of Diffusion Models
Bridging Model-Based Optimization and Generative Modeling via Conservative Fine-Tuning of Diffusion Models
Masatoshi Uehara
Yulai Zhao
Ehsan Hajiramezanali
Gabriele Scalia
Gökçen Eraslan
Avantika Lal
Sergey Levine
Tommaso Biancalani
463
28
0
30 May 2024
Applying language models to algebraic topology: generating simplicial
  cycles using multi-labeling in Wu's formula
Applying language models to algebraic topology: generating simplicial cycles using multi-labeling in Wu's formulaInternational Conference on Machine Learning (ICML), 2023
Kirill Brilliantov
Fedor Pavutnitskiy
D. Pasechnyuk
German Magai
181
0
0
01 Jun 2023
Fourier Representations for Black-Box Optimization over Categorical
  Variables
Fourier Representations for Black-Box Optimization over Categorical VariablesAAAI Conference on Artificial Intelligence (AAAI), 2022
Hamid Dadkhahi
Jesus Rios
Karthikeyan Shanmugam
Payel Das
301
11
0
08 Feb 2022
Regression Transformer: Concurrent sequence regression and generation
  for molecular language modeling
Regression Transformer: Concurrent sequence regression and generation for molecular language modelingNature Machine Intelligence (Nat. Mach. Intell.), 2022
Jannis Born
Matteo Manica
338
136
0
01 Feb 2022
ReLSO: A Transformer-based Model for Latent Space Optimization and
  Generation of Proteins
ReLSO: A Transformer-based Model for Latent Space Optimization and Generation of Proteins
Egbert Castro
Abhinav Godavarthi
Julian Rubinfien
Kevin B. Givechian
Dhananjay Bhaskar
Smita Krishnaswamy
252
10
0
24 Jan 2022
A primer on model-guided exploration of fitness landscapes for
  biological sequence design
A primer on model-guided exploration of fitness landscapes for biological sequence design
Sam Sinai
Eric D. Kelsic
271
33
0
04 Oct 2020
1
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