Top 40
View all ›BACKFILLED Code and industry signals are partial for backfilled days.
Rank 1
ML / AI methods
Deep learning tools advance pathology and cell phenotyping from tissue images
Recent work pairs released tooling and standardized benchmarking with image-based and spatial omics analysis across several modalities.
5 preprints · 1 published · ↑ 2.0× vs 4-wk avg
Rank 2 Tools & infrastructure
Software standardizes platform-specific omics outputs for downstream analysis
Recent preprints address format conversion, validation, and scalable processing of metabolomics and crosslinking MS outputs from multiple platforms and engines.
6 preprints · ↑ 2.1× vs 4-wk avg
Rank 3 Systems biology
Optimal dosing and density-dependent defenses shape infection and epidemic control
Preprints now model time-dependent interventions against infection and transmission endpoints, from biofilm dosing to epidemic extinction.
3 preprints · ↑ 2.0× vs 4-wk avg
Rank 4 ML / AI methods
Learned models prioritize small molecules and peptides against diverse biological targets
Recent items pair learned models with screening to prioritize kinase inhibitors, antimicrobial peptides, and cancer cell responses to cytotoxic compounds.
2 preprints · 3 published · ↑ 1.7× vs 4-wk avg
Rank 5 Structural bio & protein design
Simulation and NMR data refine conformational ensembles of flexible biomolecules
Force field benchmarks, NMR-restrained coarse-grained models, and MD studies of aggregation now test energy functions against experimental conformational data.
3 preprints · 2 published · ↑ 1.7× vs 4-wk avg
Rank 6 Computational models of cancer omics infer metabolism, telomere biology, and drug response↑ 1.7×Systems biologyRank 7 Federated mixed models, LD score regression, and ancestry inference refine trait genetics↑ 1.5×GenomicsRank 8 Graph and transformer encoders learn protein and molecular structure for prediction↑ 1.6×Structural bio & protein designRank 9 MD simulations link binding and partitioning outcomes to specific residues and charges↑ 1.6×EpigenomicsRank 10 Reference genomes and truth sets sharpen variant calling and alignment accuracy↑ 1.6×GenomicsRank 11 Individual-specific whole-brain models from fMRI co-activity and parcellation comparison↑ 1.6×Systems biologyRank 12 Quantitative classification and atlases place biological structure on shared spatial axesSystems biologyRank 13 Learned representations couple spatial omics to tissue domains, cell states and alignmentTranscriptomicsRank 14 Genome-scale microbial surveys map exopolysaccharide and selenoprotein gene contentGenomicsRank 15 Isoform and single-cell resolution map neuronal states and cell-type enhancersML / AI methodsRank 16 Graph-structured deep learning predicts perturbation, interaction, and drug responseML / AI methodsRank 17 Affinity models face distribution shift, confounds, and uncertainty-aware evaluationML / AI methodsRank 18 Biology-specific language models for DNA, protein families and mRNA designML / AI methodsRank 19 Adapting protein language models and structure samplers to stability and conformationsStructural bio & protein designRank 20 LLMs guiding molecule edits, protein benchmarks, and PubMed-grounded synthesisML / AI methods
Show 19 more
Rank 21 Chromosome-scale assemblies link genome structure to resistance and oil compositionGenomicsRank 22 Immunogenicity joins affinity as an explicit ML objective in antibody and neoepitope…Structural bio & protein designRank 23 Defense and anti-defense turnover co-evolve across Enterobacteriaceae genomesGenomicsRank 24 Haplotype-resolved assemblies build reference-independent sequence layers across speciesGenomicsRank 25 Benchmarking and ensembling ML predictors for protein function and pathogen effectorsML / AI methodsRank 26 Single-molecule sequencing resolves integration sites, subclonality and ctDNA mutationsGenomicsRank 27 Mechanistic state models parameterize promoter, metabolic, and stress-response dynamicsSystems biologyRank 28 Joint modeling of multi-omics networks, topics and chromatin tracks across modalitiesSingle-cellRank 29 Ensemble and free-energy methods benchmarked for PROTAC, peptide, and Mpro bindingStructural bio & protein designRank 30 Open-source tools package neuroscience analyses for web, Python, and cloud accessTools & infrastructureRank 31 Computational assignment of T-cell antigen specificity and tumor peptide presentationProteomicsRank 32 Polarizable and MD methods assessing ligand and nanoparticle binding to nucleic acidsStructural bio & protein designRank 33 Deep learning models score regulatory and pathogenic effects of genomic variantsGenomicsRank 34 Residue-level structural descriptors assess AlphaFold models and local environmentsStructural bio & protein designRank 35 GPU and k-mer algorithms speed up sequence alignment and genomic searchTools & infrastructureRank 36 Evaluations expose batch effects and sampling biases in single-cell method benchmarksSingle-cellRank 37 Chemical probing and nanopore sequencing sharpen RNA structure and modification callsStructural bio & protein designRank 38 Spatial single-cell profiling maps bladder niches and carotid plaque heterogeneitySingle-cellRank 39 Mechanical models link cell deformation, nuclear passage, and forces to measured dataSystems biology