Top 40
View all ›BACKFILLED Code and industry signals are partial for backfilled days.
Rank 1
Single-cell
Methods infer regulatory activity and chromatin contacts from sequencing data
Regulatory inference tools are now coupled to expression, chromatin contact, and single-cell and spatial multi-omic data.
7 preprints · 7 published · ↑ 2.6× vs 4-wk avg
Rank 2 Single-cell
Built-in spatial and regulatory structure in single-cell and spatial omics models
Spatial and single-cell omics tools now encode niche, regulatory, and morphological structure within the model rather than as post hoc analysis.
9 preprints · 3 published · ↑ 2.4× vs 4-wk avg
Rank 3 ML / AI methods
Deep models segment and quality-control gigapixel tissue images
Recent preprints report faster whole-slide patch extraction and cellular-resolution tissue masks for gigapixel pathology images.
5 preprints · 6 published · ↑ 2.3× vs 4-wk avg
Rank 4 Transcriptomics
Technical fidelity of RNA quantification across small, circular and edited transcripts
Absolute sncRNA quantification, circRNA artifact analysis and repeat-aware editing pipelines expose how library chemistry shapes RNA measurements.
4 preprints · 3 published · ↑ 2.1× vs 4-wk avg
Rank 5 ML / AI methods
Graph and generative models predict drug, gene, and cell-level biological relationships
Graph learning now couples biomedical knowledge graphs with explainable paths and generative models for drug and gene prediction.
6 preprints · 3 published · ↑ 1.8× vs 4-wk avg
Rank 6 Injecting structured biological priors into protein and drug representation learning↑ 1.7×Structural bio & protein designRank 7 Shared latent spaces align unpaired and weakly paired single-cell multi-omic data↑ 1.7×Single-cellRank 8 Probabilistic models resolve alleles, variants, and causal loci across genomic datasets↑ 1.7×GenomicsRank 9 Single-cell and spatial profiling resolves tumor subclonal architecture and cellular…↑ 1.5×EpigenomicsRank 10 Benchmarking and algorithms for quantitative DIA and LFQ proteomics by LC-MS↑ 1.6×ProteomicsRank 11 Models predict how electric fields and stiffness steer single-cell migration↑ 1.6×Systems biologyRank 12 Computational mapping of bacterial post-transcriptional and cis-regulatory elements↑ 1.5×GenomicsRank 13 Computational design of nucleic acid sequences for diagnostics and sensing↑ 1.5×GenomicsRank 14 Models link chromatin marks and sequence features to transcription and mutation ratesEpigenomicsRank 15 Web and pipeline tools couple genomic data to annotation, variant and drug analysisTools & infrastructureRank 16 Multi-omics and genomic models are being evaluated for feature selection and integration↑ 1.5×Systems biologyRank 17 Single-cell regulatory maps couple cis-elements to cell-type transcriptional programsML / AI methodsRank 18 Model structure governs accuracy of time-dependent sequence evolution inference↑ 1.5×Systems biologyRank 19 Recombination and structural change reshape clonal and organellar genome architecture↑ 1.6×GenomicsRank 20 AI structure models extended to protein conformational dynamics and ensemble samplingStructural bio & protein design
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Rank 21 Haplotype-resolved assemblies extend to autopolyploids and phased cultivar genomesGenomicsRank 22 Graph and polymer models resolve 3D genome domains and interchromosomal contactsEpigenomicsRank 23 Histology and graph models infer spatially resolved gene expression and tissue domainsML / AI methodsRank 24 Generative models condition molecular design on trajectories, spectra and phenotypesML / AI methodsRank 25 Generative diffusion and flow models sample protein dynamics and antibody structuresStructural bio & protein designRank 26 Protein language models are repurposed for fitness prediction, latent design, and…ML / AI methodsRank 27 Physical models link chromatin architecture and DNA topology to gene regulation outputEpigenomicsRank 28 Lower-cost pipelines bring nanopore telomere-to-telomere assembly to population genomicsGenomicsRank 29 Mechanistic models link gene expression, growth and transitions across biological scalesSystems biologyRank 30 Automated pipelines and benchmarks advance microbial genome and resistance profilingTools & infrastructureRank 31 Variant models are judged against baselines and multimodal genomic evidenceML / AI methodsRank 32 Software tools track dynamic interfaces, coevolving residues, and pKa shifts in proteinsStructural bio & protein designRank 33 Benchmarked computational methods for tandem repeats, copy-number variants, and…GenomicsRank 34 TE-derived promoters show tissue-specific activity; TE dynamics shape non-model genomesGenomicsRank 35 Evaluation design shapes reported performance of toxicity and activity prediction modelsML / AI methodsRank 36 Biological ground truth used to constrain and test machine learning models of neural…Systems biologyRank 37 Synonymous and missense variant resources extend pathogenicity predictionTools & infrastructureRank 38 MD and machine learning frameworks probe immune-checkpoint and signaling modulatorsSingle-cellRank 39 Single-cell B cell transcriptomics yields a gene signature predicting antibody affinitySingle-cellRank 40 Browser and agent-driven tools standardize EV, transcriptomic and omics plotting workflowsTools & infrastructure