Top 40
View all ›BACKFILLED Code and industry signals are partial for backfilled days.
Rank 1
Single-cell
Explicit noise and measurement models refine RNA-seq cell-type and spatial inference
Single-cell, nucleus and spatial RNA-seq datasets now demand explicit handling of noise, transcript assignment and cross-platform shifts.
10 preprints · 4 published · ↑ 2.4× vs 4-wk avg
Rank 2 ML / AI methods
Deep learning predicts molecular interactions, binding effects and designed ligands
Recent work extends sequence, graph and language-model architectures to interaction, binding-affinity and molecular design tasks.
9 preprints · 5 published · ↑ 2.4× vs 4-wk avg
Rank 3 Structural bio & protein design
Benchmarking docking and structure models for protein and PROTAC complexes
Recent preprints and publications benchmark docking and AlphaFold 3 models for antibody, ebolavirus and PROTAC complexes against physics-based tools.
4 preprints · 2 published · ↑ 2.4× vs 4-wk avg
Rank 4 ML / AI methods
Computational tools for marker detection, GRN inference, and expression benchmarking
Recent work tests new scoring, forecasting, and information-theoretic methods on transcriptomic data against simple baselines.
2 preprints · 4 published · ↑ 1.9× vs 4-wk avg
Rank 5 ML / AI methods
Deep learning links genomic variants and chromatin accessibility to gene regulation
Sequence-based and single-cell models now map variants and chromatin accessibility to regulatory and expression readouts across several genomic modalities.
3 preprints · 2 published · ↑ 1.9× vs 4-wk avg
Rank 6 Gapless and long-read human genome references with population-scale multiomic data↑ 2.0×GenomicsRank 7 Graph and transport models infer regulatory and cell-state structure from transcriptomes↑ 1.8×Single-cellRank 8 Computational prediction scales from single proteins to human proteome-wide screens↑ 1.8×Structural bio & protein designRank 9 Open computational tools for methylation, single-cell, CLIP and k-mer data analysis↑ 1.6×Tools & infrastructureRank 10 Genomic resources shift toward marker, population and epigenetic inference in crops and…↑ 1.6×GenomicsRank 11 Machine learning links bacterial genotypes to antimicrobial resistance phenotypes↑ 1.6×ML / AI methodsRank 12 Computational Prediction of Immune Protein Recognition and BenchmarkingML / AI methodsRank 13 GPU and SIMD acceleration of sequence alignment and metagenomic read simulation↑ 1.6×Tools & infrastructureRank 14 Reduced and learned representations recover conformational dynamics from MD and AFM data↑ 1.6×Structural bio & protein designRank 15 Protein language embeddings aligned with structure, binding-site and text modalities↑ 1.5×ML / AI methodsRank 16 Structure-based and learned methods predict small-molecule and RNA binding recognition↑ 1.5×Structural bio & protein designRank 17 Kinetic and noise-aware models infer single-cell gene expression dynamics↑ 1.6×Single-cellRank 18 MD simulations map allosteric rewiring and lipid scrambling in viral and membrane proteins↑ 1.6×Structural bio & protein designRank 19 Computational models prioritize targets in neuroblastoma, metastasis and kinase signalingSystems biologyRank 20 Computational tools for MS and imaging omics: benchmarking, metadata, and annotation↑ 1.6×Metabolomics
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Rank 21 Learned tokenization and compression reshape biological sequence and structure models↑ 1.5×ML / AI methodsRank 22 Computational inference of metabolic regulation from spatial and multi-omic dataSystems biologyRank 23 Genome-scale mining uncovers novel antimicrobial peptides and bacteriocinsGenomicsRank 24 Reduced-alignment methods advance microbial and metagenomic sequence analysisGenomicsRank 25 Slide diversity and fused inputs shape H&E histopathology model learningML / AI methodsRank 26 Tools for preprocessing and deduplicating omics and sequencing data filesTools & infrastructureRank 27 Open-source tools link mechanistic models, machine learning, and LLM agents in biologyTools & infrastructureRank 28 Learned models and LLM pipelines prioritize compounds and therapeutic assetsTools & infrastructureRank 29 Reference-free and assembly-quality methods for genome and diversity assessmentGenomicsRank 30 Engineered representations of brain dynamics and topology for neuroimaging analysisSystems biologyRank 31 Intrinsic noise, hysteresis, and Boolean ensembles probe cellular state stabilitySystems biologyRank 32 Computational modeling of flexible CDR loops and immune-relevant protein structuresStructural bio & protein designRank 33 Causal evaluation and graph learning for gene regulatory and disease networksSystems biologyRank 34 Mesoscale geometry and transport govern condensate aging and protein kineticsSystems biologyRank 35 Microstructure-informed models link myofibril and fiber networks to tissue-scale mechanicsSystems biologyRank 36 Differentiable and recurrent models link neural dynamics to learning and behaviorSystems biologyRank 37 Convergent gene gain and loss in land colonization; a mammalian speciation supergeneGenomicsRank 38 Machine learning maps plant microproteins, legume expression, and ovule gene regulationGenomicsRank 39 Single-cell readouts link gene perturbations, morphology and splicing to functionSingle-cellRank 40 Sequencing and marker design set which environmental lineages enter genomic datasetsGenomics