Top 40
View all ›BACKFILLED Code and industry signals are partial for backfilled days.
Rank 1
Epigenomics
Joint chromatin and expression profiling resolves cell-type cis-regulatory variation
Paired single-cell chromatin and expression data now resolve regulatory variation and aging effects within individual cell types.
6 preprints · 7 published · ↑ 3.8× vs 4-wk avg
Rank 2 Single-cell
Learned integration of heterogeneous omics layers for cancer and cell-level prediction
Transfer learning and biology-embedded architectures are being applied to bulk, single-cell, spatial, and drug-response data under domain shift.
6 preprints · 3 published · ↑ 2.8× vs 4-wk avg
Rank 3 ML / AI methods
Learned models probe RNA structure, regulation, and design under fair benchmarking
Fair-split benchmarking shows limited RNA secondary-structure generalization, while new foundation and diffusion models target RNA design and refinement.
5 preprints · 1 published · ↑ 2.4× vs 4-wk avg
Rank 4 ML / AI methods
ML and statistical methods quantify mosaic and low-frequency genomic variation
Bulk-informed, HMM, and ML models now extract somatic and mosaic variation from single-cell, long-read, and cfDNA sequencing data.
6 preprints · ↑ 2.4× vs 4-wk avg
Rank 5 ML / AI methods
Pretrained sequence models extend to enzyme, variant, RNA, and DNA prediction tasks
Recent work pairs pretrained protein and nucleic acid language model embeddings with task-specific architectures for variant, enzyme, and RNA prediction.
4 preprints · 5 published · ↑ 2.2× vs 4-wk avg
Rank 6 Language model embeddings paired with structural graphs for protein binding prediction↑ 2.1×Structural bio & protein designRank 7 Deep models prioritize disease genes and repurposable drugs from omics and graph data↑ 2.0×ML / AI methodsRank 8 Computational tools and models for viral genomics, phage hosts, and reassortment↑ 1.7×GenomicsRank 9 Sequence-based tools and CRISPR records map bacterial mobile genetic element activity↑ 1.9×GenomicsRank 10 Computational methods extract spatial programs from transcriptomic and histologic data↑ 1.7×TranscriptomicsRank 11 Generative models predict perturbation responses in single-cell and patient-level data↑ 1.7×Single-cellRank 12 Molecular representations gaining biological, multimodal and uncertainty-aware components↑ 1.7×ML / AI methodsRank 13 Integrative modeling resolves conformational states of multicomponent assemblies↑ 1.7×Structural bio & protein designRank 14 Validating gene models and resolving deleterious variants across crop and plant genomes↑ 1.6×GenomicsRank 15 Process-level parameters and timing set evolutionary outcomes in mechanistic models↑ 1.6×Systems biologyRank 16 Annotation pipelines now model technical bias and denoise sequencing-derived callsTools & infrastructureRank 17 Computational recovery of 3D spatial organization from sparse or serial dataTranscriptomicsRank 18 Performance-engineered tools speed up sequencing-scale genomic data analysisTools & infrastructureRank 19 Metapopulation models couple mobility and surveillance to guide pathogen controlSystems biologyRank 20 Poisson-Boltzmann electrostatics reveal species-dependent asymmetry in ATP synthaseStructural bio & protein design
Show 20 more
Rank 21 Language models generate and optimize mRNA and antibody sequences across speciesML / AI methodsRank 22 Noise limits, imputation and count-model fits shape single-cell RNA-seq inferenceSingle-cellRank 23 Knowledge graphs and graph models integrate gene, pathway and protein-function dataSystems biologyRank 24 Generative models design receptor binders and scFvs, scoring affinity and epitope fitStructural bio & protein designRank 25 Local ancestry dosages and stability criteria refine genotype-based inferenceGenomicsRank 26 Interpretable models sharpen causal gene and regulatory inference from genomic evidenceEpigenomicsRank 27 Generative models sample biomolecular conformational ensembles guided by dataStructural bio & protein designRank 28 Computational profiling resolves disease-associated cell states across tissuesSingle-cellRank 29 Explicit dynamical models interrogate metabolism, circadian timing, and single-cell fateSystems biologyRank 30 Latent Prediction and Benchmarks for EEG and Single-Unit Neural DataML / AI methodsRank 31 Shared latent representations pooling information across individuals, species and cellsSingle-cellRank 32 Pangenome graphs are being formalized for diversity, homology, and comparisonGenomicsRank 33 Latent representations infer cell fate, lineage, and drug response from single-cell dataSystems biologyRank 34 LLM agents run executable, provenance-tracked analysis of spatial and multi-omics dataTools & infrastructureRank 35 Computational models infer genome replication, editing efficiency and RNAi designML / AI methodsRank 36 Force fields and integrative models extend simulations of glycans and collagenStructural bio & protein designRank 37 Simulations couple adhesion, actin and lamina mechanics to self-organizationStructural bio & protein designRank 38 Constant-space minimizers and compact k-mer indexes for low-memory genomic lookupTools & infrastructureRank 39 Generative models design AAV capsids, designed DNA, and polymerase variantsStructural bio & protein designRank 40 Sequence-based inference of disease, resistance, and secretion traits across genomesGenomics