Top 40
View all ›BACKFILLED Code and industry signals are partial for backfilled days.
Rank 1
ML / AI methods
ML models predict cancer treatment response from multi-omics and drug representations
Recent preprints and publications apply attention fusion, graph embeddings, and single-cell foundation models to predicting drug response.
6 preprints · 5 published · ↑ 2.4× vs 4-wk avg
Rank 2 Transcriptomics
Benchmarking computational tools for long-read RNA modification and variant analysis
Recent preprints and publications benchmark nanopore modification callers, long-read isoform tools, and variant classifiers against reference data.
10 preprints · 3 published · ↑ 2.3× vs 4-wk avg
Rank 3 ML / AI methods
Structure-constrained embeddings couple gene regulation to histology and spatial tissue
Spatial transcriptomics and histology foundation models are now being trained with explicit graph, label, and spatial constraints.
10 preprints · 4 published · ↑ 2.3× vs 4-wk avg
Rank 4 ML / AI methods
Graph and sequence fusion with optimal transport for drug-target interaction prediction
Scarce labels and heterogeneous molecular data motivate graph-sequence fusion and optimal-transport alignment in recent interaction models.
2 preprints · 3 published · ↑ 2.1× vs 4-wk avg
Rank 5 ML / AI methods
Latent neural representations across scales, modalities and recording types
Heterogeneous fMRI, iEEG, spike and LFP recordings now yield latent representations that explicitly handle scale and modality differences.
6 preprints · 1 published · ↑ 2.1× vs 4-wk avg
Rank 6 Perturbation models judged by generalizability and cross-system transportability↑ 2.1×Systems biologyRank 7 Structure-based energy models predict ligand binding, RNA folding, and Cas9 activity↑ 2.1×Structural bio & protein designRank 8 Assigning binding energetics to individual residues and side-chain conformations↑ 2.0×Structural bio & protein designRank 9 Standardized scoring of gene and isoform features against reference sets and datasets↑ 2.1×Systems biologyRank 10 Assemblies link genome architecture to size, repeat expansion and demographic history↑ 1.9×GenomicsRank 11 Lineage and spatial context linked to single-cell behavior in multicellular data↑ 1.6×ML / AI methodsRank 12 Steering generative models via conditioning and constraints toward functional molecules↑ 1.6×ML / AI methodsRank 13 Comparative genomics and metabolic modeling resolve microbial lineage-level diversity↑ 1.6×GenomicsRank 14 Single-cell data map cell-type-specific genetic regulation and drug responses↑ 1.5×Single-cellRank 15 Computational fixes and inference tools for single-cell and spatial transcriptomics↑ 1.5×Single-cellRank 16 Computational methods sharpen imaging of intact cells and protein structures↑ 1.5×Structural bio & protein designRank 17 Structural and sequence data encoded as graphs and 3D windows for pattern mining↑ 1.6×Structural bio & protein designRank 18 RBP binding links exon usage and chromatin marks, with NMD efficiency altered in tumorsEpigenomicsRank 19 Learned models reduce annotation dependence in cell microscopy and cytomorphologyML / AI methodsRank 20 Pretrained encoders versus lightweight sequence embeddings for biological classificationML / AI methods
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Rank 21 Explicit models tie excitatory/inhibitory balance to network dynamics and stimulationSystems biologyRank 22 Python and R tools standardise, benchmark and interval-process omics data outputsTools & infrastructureRank 23 Computational tools refine peptide, peak, and formula identification from mass spectraProteomicsRank 24 Association methods resolve epistasis, dominance and regulatory structure in traitsGenomicsRank 25 Structure predictors lose reliability on disordered, amyloid, and nanobody-ligand targetsStructural bio & protein designRank 26 Estimators for batch correction, metacells and spatial denoising in single-cell dataSingle-cellRank 27 LLM agents automate NGS analysis as platforms target drug exposure and combinationsTools & infrastructureRank 28 Mechanistic models of chromosome folding are constrained by experimental observablesEpigenomicsRank 29 Metabolic modelling and inference link microbial metabolites to host phenotypesSystems biologyRank 30 Reference-based benchmarks test analysis pipeline choices across omics data typesProteomicsRank 31 k-mer sketching defines bacterial strain boundaries; ML flags horizontal gene transferGenomicsRank 32 Correcting platform and batch effects in methylation and genotype inferenceEpigenomicsRank 33 Neural models constrained by explicit mechanistic form in pathway and trajectory dynamicsSystems biologyRank 34 Simulation and screening method choices are being framed as reportable design decisionsStructural bio & protein designRank 35 Compact k-mer and minimizer indexes target pangenome, ancient DNA and long-read mappingGenomicsRank 36 New tools model haplotype blocks, ancestral recombination graphs and GBS dataGenomicsRank 37 Resolved genome architecture and chromatin regulation in stress and 3D genome contextsEpigenomicsRank 38 Functional annotation and cross-disorder modeling extend GWAS interpretationGenomicsRank 39 Neoantigen prioritization layers genomic, expression and HLA-level evidenceTools & infrastructureRank 40 Complete centromere and telomere assemblies reveal variation in repeat-rich genomesGenomics