Single-cell multi-omic detection of DNA methylation and histone modifications reconstructs the dynamics of epigenomic maintenance. #SingleCell #MultiOmics #DNAmethylation #Epigenomics @natmethods.nature.com www.nature.com/articles/s41...

EpiAgent: foundation model for single-cell epigenomics. #Epigenetics #SingleCell @natmethods.nature.com www.nature.com/articles/s41...

A genomic view of Earth’s biomes. #EarthMicrobiomes @natrevgenet.nature.com www.nature.com/articles/s41...

Advances in haplotype phasing and genotype imputation. #HaplotypePhasing #GenomeImputation @natrevgenet.nature.com www.nature.com/articles/s41...

Genome-resolved metagenomics reveals microbiome diversity across 48 tick species. #TickMicrobiome #Metagenomics #Genomics @natmicrobiol.nature.com www.nature.com/articles/s41...

A standardized framework for circulating blood proteomics. #Proteomics #BloodProteins @natgenet.nature.com www.nature.com/articles/s41...

Long-read sequencing and chemical synthesis access previously hidden antibiotics. #LongReads #Sequencing #UnculturedSoilBacteria #Genomics #Metagenomics @natbiotech.nature.com www.nature.com/articles/s41...

A single-cell transcriptome atlas of pig skin reveals cellular heterogeneity from embryonic development to postnatal aging. #scRNAseq #PigSkinCells #TranscriptomeAtlas #Genomics #BMCbiology bmcbiol.biomedcentral.com/articles/10....

MitoDelta: identifying mitochondrial DNA deletions at cell-type resolution from single-cell RNA sequencing data. #mtDNA #SingleCell #scRNAseq #Sequencing #Genomics #Bioinformatics #BMCgenomics bmcgenomics.biomedcentral.com/articles/10....

Evaluating genome sequencing strategies: trio, singleton, and standard testing in rare disease diagnosis. #RareDiseases #GeneticVariants #SequencingStrategies #Genomics #GenomeMedicine genomemedicine.biomedcentral.com/articles/10....

A comprehensive benchmarking of adaptive sampling tools for nanopore sequencing. #Nanopore #Sequencing #AdaptiveSampling #Benchmarking #GenomeBiology #Bioinformatics #Genomics @nanoporetech.com 🧬 🖥️ genomebiology.biomedcentral.com/articles/10....

ScIsoX: a multidimensional framework for measuring isoform-level transcriptomic complexity in single cells. #SingleCell #scRNAseq #Isoforms #GenomeBiology genomebiology.biomedcentral.com/articles/10....

Predicting the structural impact of human alternative splicing. #AlternativeSplicing #GenomeBiology genomebiology.biomedcentral.com/articles/10....

Systematic benchmarking of computational methods to identify spatially variable genes. #SpatialTranscriptomics #MethodsBenchmarking #GenomeBiology genomebiology.biomedcentral.com/articles/10....

Genomics will forever reshape forensic science and criminal justice. #Genomics #Forensics #GenomeBiology #Comment genomebiology.biomedcentral.com/articles/10....

Pangenomics and single-cell transcriptomics uncover the genetic basis of continuous bearing trait in grapevine. #Pangenomics #GrapevineGenome #ContinuousBearing @horticulturer.bsky.social academic.oup.com/hr/advance-a...

GViNC: an innovative framework for genome graph comparison reveals hidden patterns in the genetic diversity of human populations. #GenomeGraphs #GraphsComparison #NARgenomicsAndBioinformatics academic.oup.com/nargab/artic...

A Vision of How Low-Coverage Sequence Data Should Contribute to Genetic Evaluation in the Future. #LowCoverageSequencing #WGS #GeneticVariants #Genotyping #JournalOfAnimalScience academic.oup.com/jas/advance-...

www.genomeweb.com/sequencing/e... Element Bio sues Illumina

Haplotype-resolved genome and multi-omics landscape reveal an epigenetic regulation of citric acid accumulation in lemon. #LemonGenome #HaplotypeResolvedGenome #EpigeneticRegulation @plantphys.bsky.social academic.oup.com/plphys/advan...

colorSV: Long-range Somatic Structural Variation Calling from Matched Tumor-normal Co-assembly Graphs. #SomaticStructuralVariants #SV #CoassemblyGraphs #Bioinformatics #Genomics #GenomicsProteomicsBioinformatics academic.oup.com/gpb/advance-...

Cell-free DNA as a potential alternative to genomic DNA in genetic studies. #cfDNA #DNAseq #GeneticStudies #NARgenomicsAndBioinformatics academic.oup.com/nargab/artic...

A complete diploid human genome benchmark for personalized genomic. #HumanGenome #ReferenceGenome #DiploidGenome #T2T #HG002 #Q100project #Bioinformatics #Genomics @biorxivpreprint 🧬 🖥️ www.biorxiv.org/content/10.1...

Integrative genotyping and analysis of canine structural variation using long-read and short-read data. #DogGenetics #StructuralVariants #LongRead #SequenceData @genomebiolevol.bsky.social academic.oup.com/gbe/advance-...

A comprehensive water buffalo pangenome reveals extensive structural variation linked to population-specific signatures of selection. #BuffaloPangenome #StructuralVariants #Genomics #Bioinformatics @gigascience.bsky.social @roslininstitute.bsky.social academic.oup.com/gigascience/...

BVSim: A benchmarking variation simulator mimicking human variation spectrum. #DataSimulation #HumanGenomicVariants #Bioinformatics @gigascience.bsky.social academic.oup.com/gigascience/...

The Open Pediatric Cancer Project. #PediatricCancer #BrainTumorAtlas #OpenSource #MultiomicsDatset @gigascience.bsky.social academic.oup.com/gigascience/...

Finding easy regions for short-read variant calling from pangenome data. #VariantCalling #HumanGenome #PangenomeData #Bioinformatics #Genomics @gigascience.bsky.social academic.oup.com/gigascience/...

The Earth Hologenome Initiative: Data Release 1. #Hologenomes #HostMicrobiotaInteractions #AnimalGenomics #MicrobialMetagenomics #Genomics @gigascience.bsky.social academic.oup.com/gigascience/...

Competencies for bioinformatics core facility scientists: extension of the ISCB competency framework for bioinformatics. #Bioinformatics #CoreFacility #BioinformaticsCompetencies @bioinfoadv.bsky.social academic.oup.com/bioinformati...

Termal: a fast and interactive terminal-based viewer for multiple sequence alignments. #MultipleSequenceAlignments #TerminalViewer #interactiveViewer #Bioinformatics @bioinfoadv.bsky.social academic.oup.com/bioinformati...

FUSION: a family-level integration approach for robust differential analysis of small non-coding RNAs. #sncRNA #SequenceData #DataAnalysis #Bioinformatics #Genomics academic.oup.com/bioinformati...

Federated Learning for the pathogenicity annotation of genetic variants in multi-site clinical settings. #GeneticVariants #ClinicalClassification #FederatedLearning #Genomics #Bioinformatics academic.oup.com/bioinformati...

Autocycler: long-read consensus assembly for bacterial genomes. #LongRead #SequneceData #GenomeAssembly #ConsensusAssembly #BacterialGenomes #Bioinformatics 🧬 🖥️ academic.oup.com/bioinformati...

Scafari: Exploring scDNA-seq data. #scRNAseq #Bioconductor #QC #VariantAnalysis #Visualization #Bioinformatics 🧬 🖥️ academic.oup.com/bioinformati...

Scnanoseq: an nf-core pipeline for oxford nanopore single-cell RNA-sequencing. #scRNAseq #LongRead #Sequencing #Bioinformatics #Genomics 🧬 🖥️ academic.oup.com/bioinformati...

PatchWorkPlot: simultaneous visualization of local alignments across multiple sequences. #AlignmentVisualization #LocalAlignments #Bioinformatics #Genomics 🧬 🖥️ academic.oup.com/bioinformati...

CompareM2 is a genomes-to-report pipeline for comparing microbial genomes. #MicrobialGenomes #Bioinformatics 🧬 🖥️ academic.oup.com/bioinformati...

UMI-nea: A Fast, Robust Tool for Reference-Free UMI Deduplication and Accurate Quantification. #UMIdeduplication #ReferenceFree #Bioinformatics #Genomics 🧬 🖥️ academic.oup.com/bioinformati...

ASOG: AntiSense Oligonucleotide Generator. #Oligonucleotides #ComputationalStructuralBiotechnology 🧬 🖥️ www.sciencedirect.com/science/arti...

Use of the CHM13-T2T genome improves metagenomic analysis by minimizing host DNA contamination. #MetagenomicAnalysis #HostDNA #CHM13T2T #ReferenceGenome #mSystems journals.asm.org/doi/10.1128/...

Unmasked: transposable elements as drivers and targets in cancer. #TransposableElements #TEs #CancerDrivers @cp-trendsgenetics.bsky.social www.cell.com/trends/genet...

Large language models for drug discovery and development. #LLMs #DrugDiscovery @cp-patterns.bsky.social 🧬 🖥️ www.cell.com/patterns/ful...

Enhanced detection of RNA modifications in Escherichia coli utilizing direct RNA sequencing. #RNAmodifications #directRNAsequencing #Nanopore #Sequencing @nanoporetech.com @cp-cellrepmethods.bsky.social 🧬 🖥️ www.cell.com/cell-reports...

OmniExtract: An automatic data extraction tool based on Large Language Model and Prompt Engineering. #OmicsData #Genomics #Bioinformatics #DataRetrieval @biorxivpreprint.bsky.social 🧬 🖥️ www.biorxiv.org/content/10.1...

Real-time raw signal genomic analysis using fully integrated memristor hardware. #RealTimeAnalysis #RawSignalAnalysis #Genomics #Bioinformatics #Nanopore #Sequencing @nanoporetech.com @natcomputsci.nature.com www.nature.com/articles/s43...

Pangenome-based identification of cryptic pathogenic variants in undiagnosed rare disease patients. #GeneticVariants #PathogenicVariants #Pangenomes #LongRead #Sequencing @medrxivpreprint.bsky.social 🧬 🖥️ www.medrxiv.org/content/10.1...

Anchors for Homology-Based Scaffolding. #GenomeScaffolding #GenomeAssembly @biorxivpreprint.bsky.social 🧬 🖥️ www.biorxiv.org/content/10.1...

Accurate MAG reconstruction from complex soil microbiome through combined short- and HiFi long-reads metagenomics. #MAGs #metagenomics #SoilMicrobiome #ShortReads #LongReadds #Sequencing @biorxivpreprint.bsky.social 🧬 🖥️ www.biorxiv.org/content/10.1...

Benchmarking long-read RNA-sequencing technologies with LongBench: a cross-platform reference dataset profiling cancer cell lines with bulk and single-cell approaches. #LongRead #Sequencing #TechnologyBenchmarking #SingleCell #RNAseq @biorxivpreprint.bsky.social 🧬 🖥️ www.biorxiv.org/content/10.1...