- CLoNe: automated clustering based on local density neighborhoods for application to biomolecular structural ensembles
- Correction to: Eye‑color and Type‑2 diabetes phenotype prediction from genotype data using deep learning methods
- Novel deep learning-based transcriptome data analysis for drug-drug interaction prediction with an application in diabetes
- PPalign: optimal alignment of Potts models representing proteins with direct coupling information
- Forecasting the spread of COVID-19 using LSTM network
- Publisher Correction: scDesign2: a transparent simulator that generates high-fidelity single-cell gene expression count data with gene correlations captured
- Transcription shapes DNA replication initiation to preserve genome integrity
- Chromosome-level genome assembly of a regenerable maize inbred line A188
- Expanding the taxonomic range in the fecal metagenome
- BUTTERFLY: addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq
- Gene set enrichment analysis for genome-wide DNA methylation data
- The global and promoter-centric 3D genome organization temporally resolved during a circadian cycle
- Analysis of single-cell RNA sequencing data based on autoencoders
- Double matrix completion for circRNA-disease association prediction
- Exploring the functional composition of the human microbiome using a hand-curated microbial trait database
- Putative markers for the detection of early-stage bladder cancer selected by urine metabolomics
- 2-kupl: mapping-free variant detection from DNA-seq data of matched samples
- Overcoming uncollapsed haplotypes in long-read assemblies of non-model organisms
- PIGNON: a protein–protein interaction-guided functional enrichment analysis for quantitative proteomics
- Fusion of single-cell transcriptome and DNA-binding data, for genomic network inference in cortical development
Whats new in Bioinformatics
Genome Biology
- MARS: leveraging allelic heterogeneity to increase power of association testing
- Genetic impacts on DNA methylation: research findings and future perspectives
- PseudotimeDE: inference of differential gene expression along cell pseudotime with well-calibrated p-values from single-cell RNA sequencing data
- Next-generation microbiology: from comparative genomics to gene function
- The impact of cell type and context-dependent regulatory variants on human immune traits
- Best practices on the differential expression analysis of multi-species RNA-seq
- Complete vertebrate mitogenomes reveal widespread repeats and gene duplications
- Cotton pan-genome retrieves the lost sequences and genes during domestication and selection
- Drosophila primary microRNA-8 encodes a microRNA-encoded peptide acting in parallel of miR-8
- G-quadruplexes are transcription factor binding hubs in human chromatin