ICLR 2024PastGenomicsGenerative models
ICLR 2024 Workshop on Generative and Experimental Perspectives for Biomolecular Design
GEM
- Submission deadline
- Feb 8, 2024, 04:59 UTCimported from OpenReview — check the website for extensions
- Submission portal
- OpenReview
- Notes
- Topics were auto-suggested and may be imprecise — edits welcome.
Accepted papers (75)
Fetched from OpenReview (v2) on 2026-06-10.
$\textit{In vitro}$ VALIDATED ANTIBODY DESIGN AGAINST MULTIPLE THERAPEUTIC ANTIGENS USING GENERATIVE INVERSE FOLDING
3D Inverse Design of RNA using Deep Learning
A High-Throughput Human Display Screen to Identify Target-Specific Binder Proteins via Chimeric Antigen Receptors
A New Ultra-High-Throughput Assay for Measuring Protein Fitness
A proteome-scale masked language model for fast protein-protein interaction prediction
Accelerating the Generation of Molecular Conformations with Progressive Distillation of Equivariant Latent Diffusion Models
Accurate predictions of enzymatic biochemistry as an enabler for generation of de-novo sequences
AceGen: A TorchRL-based toolkit for reinforcement learning in generative chemistry
Active learning to discover pairwise genetic interactions via representation learning
AI-accelerated biocatalyst engineering by rapid microfluidic sequence-function mapping
Antibody Design with Constrained Bayesian Optimization
Antibody sequence optimization with gradient-guided discrete walk-jump sampling
CLASSIC: A platform for high throughput mapping of genetic design spaces in mammalian cells and ML guided prediction of gene circuit behavior
CLIPZyme: Reaction-Conditioned Virtual Screening of Enzymes
COMPUTATIONAL DESIGN OF NOVEL AMPAR AND NMDAR PEPTIDE MODULATORS.
Contrastive RNA Representation Learning Through Maximizing Mutual Information Between Splice Isoforms
Demystify the Secret Function in Protein Sequence via Conditional Diffusion Models
Development of A Molecular Exchange Mechanism-based Biomolecular Neural Network
DiffPaSS – Differentiable and scalable pairing of biological sequences using soft scores
DiffTopo: Fold exploration using coarse grained protein topology representations
Diffusion Generative Models for Molecule Optimization
Dirichlet Flow Matching with Applications to DNA Sequence Design
Diverse Hits in de Novo Molecule Design: A Diversity-based Comparison of Goal-directed Generators
DNA-Diffusion: Leveraging Generative Models for Controlling Chromatin Accessibility and Gene Expression via Synthetic Regulatory Elements
DyMol: Dynamic Many-Objective Molecular Optimization with Objective Decomposition and Progressive Optimization
Epitope-specific antibody design using diffusion models on the latent space of ESM embeddings
Equivariant amortized inference of poses for cryo-EM
Equivariant Pretrained Transformer for Unified Geometric Learning on Multi-Domain 3D Molecules
Evaluating predictive patterns of antigen specific B cells by single cell transcriptome and antibody repertoire sequencing
Evolution Guided Generative Flow Networks
Evolution-Inspired Loss Functions for Protein Representation Learning
EvoSBDD: Latent Evolution for Accurate and Efficient Structure-Based Drug Design
F$^3$low: Frame-to-Frame Coarse-grained Molecular Dynamics with SE(3) Guided Flow Matching
Few-Shot prediction of the experimental functional measurements for proteins with single point mutations
Fine-tuning Pocket-conditioned 3D Molecule Generation via Reinforcement Learning
Fusing Neural and Physical: Augment Protein Conformation Sampling with Tractable Simulations
Future-proof vaccine design with a generative model of antibody cross-reactivity
Generative Active Learning for the Search of Small-molecule Protein Binders
Generative Flows on Discrete State-Spaces: Enabling Multimodal Flows with Applications to Protein Co-Design
Generative Humanization for Therapeutic Antibodies
GeoDirDock: Guiding Docking Along Geodesic Paths
Graph-Based Forward Synthesis Prediction of Biocatalyzed Reactions
Green fluorescent protein engineering with a biophysics-based protein language model
How to Go With the Flow: an Analysis of Flow Matching Molecular Docking Performance With Priors of Varying Information Content
How well do generative protein models generate?
Improved motif-scaffolding with SE(3) flow matching
Low N, High N Protein Engineering
Machine learning of force fields towards molecular dynamics simulations of proteins at DFT accuracy
Model-based reinforcement learning for protein backbone design
Multi-objective generative AI for designing novel brain-targeting small molecules
On Recovering Higher-order Interactions from Protein Language Models
Ophiuchus: Scalable Modeling of Protein Structures through Hierarchical Coarse-graining SO(3)-Equivariant Autoencoders
p-IgGen: A Paired Antibody Generative Language Model
Pairing interacting protein sequences using masked language modeling
PepMLM: Target Sequence-Conditioned Generation of Peptide Binders via Masked Language Modeling
Physics-informed geometric regularization of heterogeneous reconstructions in cryo-EM
PPI-Llama2: De Novo Generation of Binding Proteins Conditioned On Target Sequence Alone
Preference optimization of protein language models as a multi-objective binder design paradigm
PROflow: An iterative refinement model for PROTAC-induced structure prediction
Programmable Protein Stabilization with Language Model-Derived Peptide Guides
Protein binding affinity prediction under multiple substitutions applying eGNNs on residue and atomic graphs combined with language model information: eGRAL
PROTEIN FITNESS LANDSCAPE NAVIGATION IS BOOSTED VIA INCORPORATING EVOLUTIONARY INFORMATION INTO MACHINE LEARNING MODELS
Protein language models are biased by unequal sequence sampling across the tree of life
Re-evaluating Retrosynthesis Algorithms with Syntheseus
RetroGFN: Diverse and Feasible Retrosynthesis using GFlowNets
Revealing data leakage in protein interaction benchmarks
RNA-Protein Interaction Classification via Sequence Embeddings
RNAFlow: RNA Structure & Sequence Co-Design via Inverse Folding-Based Flow Matching
Structure-Informed Protein Language Model
SynFlowNet: Towards Molecule Design with Guaranteed Synthesis Pathways
The Protein Engineering Tournament: An Open Science Benchmark for Protein Modeling and Design
Towards DNA-Encoded Library Generation with GFlowNets
Towards Generative RNA Design with Tertiary Interactions
Towards Structure-based Drug Design with Protein Flexibility
Unveiling the Entangled Landscape of Artificial Knotted Proteins