Discover, rate, and verify biology preprints.

Deducing splicing events from transcript sets with splicelogic

splicelogic converts transcript-set comparisons into interpretable splicing events, enabling downstream analysis of isoform changes in RNA-seq data.

Rapid, accurate, and memory-frugal sub-gene-level quantification of probe-based, multiplexed single-cell data

This paper introduces simpleaf, a tool for efficient sub-gene-level quantification of probe-based single-cell data, showing improved speed and memory use compared to existing tools.

Contrasting Range and Demographic Histories in two Palearctic Dragonfly Species (Odonata: Anisoptera)

This study examines the relationship between climatic suitability and effective population size in two dragonfly species, finding they are not directly correlated.

Curved geometry shapes the observability of hippocampal oscillations

The paper shows curved hippocampal geometry masks theta oscillations through regional cancellation, while beta and gamma oscillations remain observable due to less coordinated generators.

Theoretical prediction of assembly contiguity

The paper derives a formula (Z-value) to predict contig length from read length, coverage, and genome properties, showing high accuracy and practical applications for assembler choice and experimental design.

The structures of two intermediates en route to DNA repair within a (6-4) photolyase

The paper uses X-ray crystallography to observe intermediates in DNA repair by (6-4) photolyase, revealing an oxetane species and a hemi-cleaved intermediate.

Host-Derived Lipids Sustain Membrane Biogenesis in an Obligate Endosymbiont

The paper investigates how host-derived lipids sustain membrane biogenesis in the obligate endosymbiont Buchnera aphidicola, showing host lipid metabolism is critical for symbiont survival.

Active eye modeling: a tool for estimating retinal image quality across the visual field in everyday life

This paper introduces active eye modeling to estimate retinal image quality across the visual field during everyday activities, finding that near work under dim lighting increases peripheral blur.

Plate design confounds donor variation and model evaluation in single-cell perturbation screens

The paper shows that plate design confounds donor variation in single-cell perturbation screens and demonstrates how improved analysis methods can change interpretations of recent studies.

Bioprocess Modeling Made Easy With Hybrax

Hybrax simplifies hybrid bioprocess modeling by providing a framework that automates model setup and data handling, enabling reproducible and reusable models.

siRNA/mRNA payload of lipid nanoparticles quantified using fluorescence microscopy and correlation spectroscopy

The paper quantifies mRNA and siRNA payload in lipid nanoparticles using fluorescence microscopy and FCS, showing size-dependent payload and coencapsulation dynamics.

Aging, HIV Status, and Sex Differentially Influence Antiretroviral Therapy Disposition Pathways in Rectosigmoid Tissue and Peripheral Blood Mononuclear Cells

This study identifies how aging and HIV status differentially affect antiretroviral therapy disposition pathways in rectosigmoid tissue and PBMC, with aging causing broader changes in drug-related proteins.

Opposing Roles of Cholesterol and Cholesterol Sulfate in Proton Transfer and Diffusion at Membrane Interfaces

This study shows cholesterol and cholesterol sulfate have opposing effects on proton transfer and diffusion at membrane interfaces, with cholesterol promoting local transfer and inhibiting long-range diffusion, while cholesterol sulfate does the opposite.

Genome-wide Analysis of the VQ Gene Family and Expression Profiling in Sorghum bicolor

This study identifies and characterizes VQ genes in sorghum, showing their differential expression and potential roles in salt stress tolerance.

Hypoxia-inducible factor 2-alpha promotes fitness of cytokine-activated human natural killer cells

This study identifies HIF-2 as a critical factor for the survival of cytokine-activated human NK cells, showing it is induced by IL-2/IL-15 and not hypoxia, and its inhibition reduces NK cell viability.

SNAzzy: an image processing pipeline for investigating global Synchronous Network Activity

SNAzzy processes and analyzes high-throughput microscopy data from Drosophila embryos to study synchronous network activity.

Epigenetic Rescue of Disuse Muscle Atrophy by Histone Deacetylase Inhibitor Trichostatin A

This study shows that Trichostatin A, an HDAC inhibitor, reduces muscle atrophy and preserves nuclear organization in mice subjected to mechanical unloading.

Onsite fixation preserves phosphoprotein profile in human whole blood

This study shows that fixing whole blood at collection preserves phosphoprotein profiles, particularly in neutrophils and monocytes, better than cryopreserved PBMCs.

RhoGEF Solo regulates cell density-dependent keratin remodeling and desmosome maturation

This study shows that Solo regulates keratin-DSM interactions and DSM maturation in response to cell density through RhoGEF activity and actin remodeling.

Analysis of reproductive traits associated with lipoprotein(a) deficiency in participants from the Pakistan Genome Resource

The paper analyzes reproductive outcomes in individuals with LPA loss-of-function variants to assess the safety of Lp(a) lowering therapies.