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Khabre desk
Recent reporting, analysis and explainers from the Genomics desk.
science
A bioRxiv preprint describes a single-amplicon sequencing workflow that recovered high-quality rhinovirus genomes from clinical specimens and enterovirus coding sequences from isolates. The authors report lower reagent costs and shorter processing time than hybridization capture sequencing.
science
A bioRxiv preprint describes Carbon-A, a 1.2-billion-parameter model for predicting protein-coding genes across eukaryotes. Its authors used the model to create a database covering 48,167 genome assemblies and report strong performance across 42 benchmarks.
science
A bioRxiv preprint reports that simulated mixtures of E. coli strains made sequence-type and serotype prediction less reliable than detection of individual resistance and virulence genes. Increasing the dominant strain’s abundance improved strain-level predictions, while longer reads alone did not resolve the challenge.
science
A bioRxiv preprint reanalysed 115 whole-body RNA-sequencing libraries from female Anopheles gambiae kept at 27, 30 or 32°C. A gene-expression clock estimated warmer mosquitoes as older, but its age offset stopped widening after day five.
science
A bioRxiv preprint describes ProxiNet, a framework that learns cellular proximity from spatial transcriptomics and applies those relationships to dissociated single-cell RNA sequencing. The authors report spatial validation and use the approach to identify inferred neighborhoods in an Alzheimer dataset.
science
Researchers report a single-nucleus atlas spanning 21 adult human tissues and four donors, combining gene-expression and chromatin-accessibility data. It maps candidate regulatory elements and gene links, and uses sequence-to-function models to predict effects of fine-mapped variants.
science
Anthropic says Claude agents identified a previously uncharacterised system in bacteriophages, built around a reverse transcriptase and an array of DNA repeats. Early lab experiments found that the array is expressed as distinct short RNAs; the system’s function is still under investigation.
science
Anthropic says Claude agents identified a previously uncharacterized enzyme system in bacteriophages, built around a known reverse transcriptase and an array of DNA repeats. Early laboratory experiments found that the array is expressed as distinct short RNAs, but the system’s function is still being investigated.
science
A bioRxiv preprint presents the first genome-wide maps of four major histone modifications in the reef-building coral Pocillopora damicornis. The maps associate distinct chromatin states with gene expression, receptor-related genes, developmental functions and transposable element-like regions.
science
Researchers at Shandong University and BGI Research describe DiffGSP, a computational framework that models mRNA diffusion to reconstruct spatial gene-expression patterns. The work is a bioRxiv preprint evaluated across diverse spatial-transcriptomics datasets.