Top 40
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Transcriptomics
Reference-anchored methods for spatial cell-type annotation and deconvolution
Spatial transcriptomics methods are increasingly anchoring annotation and deconvolution to scRNA-seq references, weak supervision, and constrained LLM…
ML / AI methods
Models unifying sequences, structures, and language for biomolecular representation
BioMatrix, CellOS, and related 2026 preprints extend multimodal biological representations across sequences, structures, text, and single-cell data.
Epigenomics
Software and resources for copy-number signatures, epigenomes, and cfDNA fragmentation
Recent preprints release uniformly processed epigenomic references and reproducible R and Java tools for copy-number and cell-free DNA analyses.
Tools & infrastructure
Open computational tools for reproducible omics and chromatin sequencing analysis
Recent preprints and a published package release tools for reproducible visualization and pipeline-based analysis of omics and chromatin sequencing data.
Structural bio & protein design
Coarse-grained and deep-learning tools model protein flexibility and interfaces
Open tools now couple AlphaFold3 complexes, MD-derived pharmacophores and cryo-EM alignment to flexible protein systems at scale.