Bioinformatics

Clinical evidence, research, and medical intelligence in Bioinformatics.

stochprofIC improves noise-corrected single-cell state inference

A new distributional-regression tool links mini-bulk and single-cell data, correcting noise and revealing heterogeneous trafficking states in cancer and brain samples.

By Dr. A. Nikhil Krishnan, MBBS · 1 min ago · 6 min read

Bioinformatics·bioRxiv

DE-Rigor-Agent automates assumption-aware bulk RNA-seq differential expression

DE-Rigor-Agent filters bulk RNA-seq methods by statistical assumptions, reducing inappropriate choices in simulated datasets without added computational burden.

22 hrs ago

Bioinformatics·bioRxiv

Scientific Figure Library links figure examples to reusable plotting code

Scientific Figure Library pairs visual examples, code, and provenance so researchers can reuse figure templates with less friction…

22 hrs ago

Bioinformatics·bioRxiv

PRISM improves spatial transcriptomics by correcting ambient RNA and doublets

PRISM combines probabilistic cell typing, ambient RNA decontamination, and doublet correction to clean spatial transcriptomics data at scale.

3 days ago

Bioinformatics·bioRxiv

RoDPAA framework improves multi-view microbiome data integration

RoDPAA integrates sparse microbiome views with dissimilarity-based principal angles, recovering shared structure in IBD cohorts without log-ratio assumptions.

5 days ago

Bioinformatics·bioRxiv

SARDINE turns EWAS summary stats into epigenetic biomarker signals

SARDINE uses EWAS summary statistics, clock weights, and methylation covariance to estimate epigenetic biomarker associations without individual-level data.

6 days ago

Bioinformatics·bioRxiv

Protein language model PALM improves domain and variant effect prediction

PALM links protein sequence to domain, site, and variant effect prediction, outperforming ESM baselines on large held-out and…

7 days ago

Bioinformatics·bioRxiv

MorphoProt improves spatial protein inference with multiscale histology

MorphoProt combines RNA, multiscale histology and tissue neighborhoods to predict spatial protein abundance better than RNA-only and graph…

Nov 6, 2026

Bioinformatics·bioRxiv

Single-cell foundation models outperform baselines across cross-species tasks

A bioRxiv benchmark finds single-cell foundation models add value mainly in cross-species annotation, perturbation, and regulatory inference.

Nov 5, 2026

Bioinformatics·bioRxiv

brisc speeds single-cell analysis on CPUs without losing reproducibility

brisc is a multithreaded CPU toolkit that accelerates single-cell analysis at tens of millions of cells while preserving…

Nov 5, 2026

Bioinformatics

Clinical evidence, research, and medical intelligence in Bioinformatics.

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