bioRxiv Subject Collection: Bioinformatics
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This feed contains articles for bioRxiv Subject Collection "Bioinformatics"
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PandaMap: A Python Package for Comprehensive Visualization of Protein-Ligand Interaction Networks
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https://www.biorxiv.org/content/10.64898/2026.08.06.743421v1?rss=1
2026-08-09doi:10.64898/2026.08.06.743421Cold Spring Harbor Laboratory2026-08-09
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nf-cavalier: A Nextflow Pipeline for Rare Disease Variant Prioritization and Reporting
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https://www.biorxiv.org/content/10.64898/2026.08.06.743410v1?rss=1
2026-08-10doi:10.64898/2026.08.06.743410Cold Spring Harbor Laboratory2026-08-10
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FOCUS: end-to-end preprocessing, alignment and resolution-matched integration of spatial multi-omics data
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https://www.biorxiv.org/content/10.64898/2026.08.04.742705v1?rss=1
2026-08-09doi:10.64898/2026.08.04.742705Cold Spring Harbor Laboratory2026-08-09
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A Framework for Benchmarking Pathway Reconstruction Algorithms
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https://www.biorxiv.org/content/10.64898/2026.08.04.742550v1?rss=1
2026-08-09doi:10.64898/2026.08.04.742550Cold Spring Harbor Laboratory2026-08-09
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Mandatory use of mock communities highlighted by the descriptive comparison of Epi2Me 16S and EMU bioinformatic workflows for full-length 16S rRNA Nanopore sequencing.
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https://www.biorxiv.org/content/10.64898/2026.08.04.742759v1?rss=1
2026-08-09doi:10.64898/2026.08.04.742759Cold Spring Harbor Laboratory2026-08-09
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PanGBank: a large-scale resource of precomputed microbial pangenomes built with PPanGGOLiN
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https://www.biorxiv.org/content/10.64898/2026.08.05.742796v1?rss=1
2026-08-09doi:10.64898/2026.08.05.742796Cold Spring Harbor Laboratory2026-08-09
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A map of human protein-protein interaction embeddings for functional discovery
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https://www.biorxiv.org/content/10.64898/2026.08.07.743440v1?rss=1
2026-08-09doi:10.64898/2026.08.07.743440Cold Spring Harbor Laboratory2026-08-09
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A distribution-aware and functionally relevant novel framework for generation and discovery of bioactive peptides
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https://www.biorxiv.org/content/10.64898/2026.08.04.742799v1?rss=1
2026-08-09doi:10.64898/2026.08.04.742799Cold Spring Harbor Laboratory2026-08-09
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A generative model for dimensionality reduction with millions of features and few samples
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https://www.biorxiv.org/content/10.64898/2026.08.04.742788v1?rss=1
2026-08-09doi:10.64898/2026.08.04.742788Cold Spring Harbor Laboratory2026-08-09
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Scop3P-Toolkit: executable structure-aware workflows linking PTMs, peptides, and mutations to protein function
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https://www.biorxiv.org/content/10.64898/2026.08.04.742789v1?rss=1
2026-08-09doi:10.64898/2026.08.04.742789Cold Spring Harbor Laboratory2026-08-09
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Elucidating biosynthetic pathways related to the synthesis of small halogenated peptidic natural products in marine sponge microbiomes
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https://www.biorxiv.org/content/10.64898/2026.08.03.742642v1?rss=1
2026-08-09doi:10.64898/2026.08.03.742642Cold Spring Harbor Laboratory2026-08-09
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A Pseudo-Longitudinal Methylome Projection Framework Defines a Buccal PACE-like Aging-Rate Score from Cross-Sectional DNA Methylation Data
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https://www.biorxiv.org/content/10.64898/2026.08.03.742627v1?rss=1
2026-08-09doi:10.64898/2026.08.03.742627Cold Spring Harbor Laboratory2026-08-09
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pbcftools: parallel execution of bcftools for large variant call sets
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https://www.biorxiv.org/content/10.64898/2026.08.03.742604v1?rss=1
= 5.16) and requires bcftools; local parallel execution also requires Perl module Parallel::ForkManager. It is released under the MIT license at https://github.com/zhangge-uc/pbcftools (DOI: 10.5281/zenodo.21780361).
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Assessing Computational Models for Pharmacogenomic Variant Interpretation
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https://www.biorxiv.org/content/10.64898/2026.08.03.742561v1?rss=1
2026-08-09doi:10.64898/2026.08.03.742561Cold Spring Harbor Laboratory2026-08-09
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Move BeTween modAlities (MBTA) employs flow matching to predict single cell data modalities
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https://www.biorxiv.org/content/10.64898/2026.08.05.743110v1?rss=1
2026-08-09doi:10.64898/2026.08.05.743110Cold Spring Harbor Laboratory2026-08-09
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pysigscore: gene signatures scoring across bulk and single-cell transcriptomics
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https://www.biorxiv.org/content/10.64898/2026.08.04.742537v1?rss=1
2026-08-09doi:10.64898/2026.08.04.742537Cold Spring Harbor Laboratory2026-08-09
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Scalable Extraction of Information on Protein-Protein Interactions using Topological Data Analysis
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https://www.biorxiv.org/content/10.64898/2026.08.06.743405v1?rss=1
2026-08-09doi:10.64898/2026.08.06.743405Cold Spring Harbor Laboratory2026-08-09
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Inferring disruption of directed graphs using LIKA reveals altered protein phosphorylation networks in schizophrenia
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https://www.biorxiv.org/content/10.64898/2026.08.06.743374v1?rss=1
2026-08-07doi:10.64898/2026.08.06.743374Cold Spring Harbor Laboratory2026-08-07
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De novo transformer modeling improves recovery of genetic cell types from sparse single-cell RNA sequencing
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https://www.biorxiv.org/content/10.64898/2026.08.03.742620v1?rss=1
2026-08-07doi:10.64898/2026.08.03.742620Cold Spring Harbor Laboratory2026-08-07
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Distribution-Constrained Optimization for Reliable ML-Guided 5'UTR Sequence Design
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https://www.biorxiv.org/content/10.64898/2026.08.03.742388v1?rss=1
2026-08-07doi:10.64898/2026.08.03.742388Cold Spring Harbor Laboratory2026-08-07
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DigiAra Computationally Designs Plant Mutants for Resistance to Microbial Infection in Arabidopsis
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https://www.biorxiv.org/content/10.64898/2026.08.07.743468v1?rss=1
2026-08-07doi:10.64898/2026.08.07.743468Cold Spring Harbor Laboratory2026-08-07
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A hierarchical orthology framework reveals viral carbohydrate-active genes across the global virosphere
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https://www.biorxiv.org/content/10.64898/2026.08.04.742344v1?rss=1
2026-08-07doi:10.64898/2026.08.04.742344Cold Spring Harbor Laboratory2026-08-07
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Phylogeny-aided detection of contamination in nearly 5 million SARS-CoV-2 genomes
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https://www.biorxiv.org/content/10.64898/2026.08.07.743473v1?rss=1
2026-08-07doi:10.64898/2026.08.07.743473Cold Spring Harbor Laboratory2026-08-07
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HANSEN: An Integrated Structural and Functional Proteome Resource for Structure-Guided Drug Discovery in Mycobacterium leprae
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https://www.biorxiv.org/content/10.64898/2026.08.03.741541v1?rss=1
2026-08-07doi:10.64898/2026.08.03.741541Cold Spring Harbor Laboratory2026-08-07
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AI semantics for biomedical data integration
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https://www.biorxiv.org/content/10.64898/2026.08.03.742514v1?rss=1
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Resolving the immune response across clonal cancer evolution in situ with whole transcriptome profiling
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https://www.biorxiv.org/content/10.64898/2026.08.03.741871v1?rss=1
2026-08-07doi:10.64898/2026.08.03.741871Cold Spring Harbor Laboratory2026-08-07
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RiboRep: Replicate-Aware Cross-Modal Transformers for Codon-Resolved Ribosome Density Prediction
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https://www.biorxiv.org/content/10.64898/2026.08.03.742524v1?rss=1
2026-08-07doi:10.64898/2026.08.03.742524Cold Spring Harbor Laboratory2026-08-07
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PhysioMap: an ontology-grounded causal knowledge graph of human physiology
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https://www.biorxiv.org/content/10.64898/2026.08.03.742471v1?rss=1
2026-08-07doi:10.64898/2026.08.03.742471Cold Spring Harbor Laboratory2026-08-07
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Synthetic Longitudinal Tabular Data Generation via Copula
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https://www.biorxiv.org/content/10.64898/2026.08.03.742474v1?rss=1
2026-08-07doi:10.64898/2026.08.03.742474Cold Spring Harbor Laboratory2026-08-07
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REFCON: Reference-free and robust copy number inference in single-cell tumor transcriptomes
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https://www.biorxiv.org/content/10.64898/2026.08.03.742406v1?rss=1
2026-08-07doi:10.64898/2026.08.03.742406Cold Spring Harbor Laboratory2026-08-07