Top 40
View all ›BACKFILLED Code and industry signals are partial for backfilled days.
Rank 1
ML / AI methods
Deep and representation learning models integrate spatial, multiomic, and protein data
Multi-modal generative, contrastive, and graph models are now applied to spatial transcriptomics, multiomics, and protein function data.
7 preprints · 5 published · ↑ 2.1× vs 4-wk avg
Rank 2 Single-cell
Inferring regulatory activity from single-cell, nuclear, and cell-free DNA readouts
Single-cell and cell-free DNA profiling now resolves enhancer activity, splicing states, and chromatin accessibility QTLs across tissues and disease contexts.
7 preprints · 5 published · ↑ 2.1× vs 4-wk avg
Rank 3 ML / AI methods
Computational models map sequence variation to protein-level properties, with validation
Benchmarking against large experimental datasets now quantitatively tests energy-based and language-model predictions of sequence effects.
7 preprints · 4 published · ↑ 2.0× vs 4-wk avg
Rank 4 Tools & infrastructure
Open-source software now covers pathology, omics, and long-read epigenetic analysis
Recent preprints and publications release installable tools for preprocessing, visualization, and modeling of multimodal biological data.
8 preprints · 3 published · ↑ 2.0× vs 4-wk avg
Rank 5 ML / AI methods
Interpretable deep models for DNA sequence-to-function and regulatory prediction
Recent preprints test whether sequence-based deep models for regulatory genomics yield interpretable predictions, not just accurate ones.
7 preprints · 1 published · ↑ 1.6× vs 4-wk avg
Rank 6 Temporal models resolve aging and regulatory dynamics from populations to single cellsSingle-cellRank 7 Feedback and canalization buffer cellular network outputs against perturbationSystems biologyRank 8 Graph models encode chemical structure for property, interaction and reaction predictionML / AI methodsRank 9 Label-efficient deep learning segments electron and microscopy images across scalesML / AI methodsRank 10 Generative models design target-specific ligands under docking and property objectivesStructural bio & protein designRank 11 Machine learning tools classify virus taxonomy, lifestyle, and metagenomic recoveryGenomicsRank 12 Sequence analysis tools target misassembly, phasing, ancestry, and ancient virusesGenomicsRank 13 Language models predict regulatory, variant, and target effects from sequence embeddingsML / AI methodsRank 14 Sequence models predict viral evolution, RNA structure and protein mutational effectsML / AI methodsRank 15 Graph and language-model representations predict drug, ligand, and kinase interactionsML / AI methodsRank 16 Open computational tools for microbial pan-genomes, marker selection, and genome…Tools & infrastructureRank 17 MD simulations map dynamic allosteric routes across nucleic acid and protein targetsStructural bio & protein designRank 18 Multiscale computational methods resolve spatial tissue organization in transcriptomicsTranscriptomicsRank 19 Computational tools for processing large, heterogeneous sequence collectionsGenomicsRank 20 Generative models design mRNA codon and UTR sequences for higher translation and stabilityStructural bio & protein design
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Rank 21 Curated benchmarks test computational methods against experimental reference dataStructural bio & protein designRank 22 Machine learning and coarse-grained models extend biomolecular dynamics simulationStructural bio & protein designRank 23 Local rules and disorder shape emergent dynamics in neural, tissue, and condensate systemsSystems biologyRank 24 Mechanistic models of immunity waning, reinfection, and staged viral buddingSystems biologyRank 25 Biophysical models link EEG rhythm changes to sleep stages and consciousness disordersSystems biologyRank 26 LLM agents and embeddings are being used to query and annotate transcriptomic dataSingle-cellRank 27 Deep learning models predict PTM and DIA fragment spectra for proteomicsProteomicsRank 28 Bootstrap and benchmark tests for learned network differences and inference accuracyMetabolomicsRank 29 Whole metagenome sequencing recovers ~60% of modeled microbiome function at full depthGenomicsRank 30 Model-based prioritization of therapeutic targets from mechanistic and AI-driven modelsSystems biologyRank 31 Comparative animal genomes reveal convergent gene loss in land colonizationGenomicsRank 32 Anisotropic and fluid-coupled models link tissue mechanics to organ-scale deformationSystems biologyRank 33 Tools for estimating and benchmarking parameters of biochemical and gene network modelsSystems biologyRank 34 Constraint-guided diffusion and structure hallucination for protein designStructural bio & protein designRank 35 Benchmarking and automating docking and QC/MM simulation of biomolecular complexesStructural bio & protein design