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PHOTON captures subcellular RNA localization using imaging and sequencing, revealing m6A's role in stress granule mRNA partitioning.

The paper updates a polygenic index repository with more phenotypes, datasets, and improved causal inference methods, enhancing predictive performance and interpretability.

This paper identifies S166 phosphorylation on LSD1 as a regulatory switch that controls gene activation, chromatin remodeling, and tumor microenvironment in non-hormonal cancer cells.

Mobius, a transformer model using DNA methylation data, accurately distinguishes ME/CFS, Long COVID, and healthy controls with high performance.

This study uses RNA-sequencing to analyze how calorie restriction and rapamycin affect gene expression in yeast, revealing their synergistic effect in extending postmitotic cell lifespan.

The paper presents a method to estimate genome size using mapping-based approaches and demonstrates its application across various organisms.

MedakaBase provides a centralized platform for genomic resources and analysis tools for medaka fish, including gene models and omics data for multiple Oryzias species.

This study uses ancient DNA data to show genetic continuity in the Northern Iranian Plateau from the Copper Age to the Sassanid Empire, with some western genetic influence.

ATaRVa improves TR genotyping accuracy and efficiency using long-read sequencing, excels in low coverage datasets, and includes motif decomposition and methylation profiling.

DiffInvex identifies chemotherapy resistance genes by analyzing 10,000 cancer genomes, finding known and novel genes under conditional selection for specific therapies.

The paper identifies a noncanonical role for KZFPs in restricting TE-derived regulatory elements to maintain cell-type identity, independent of TRIM28.

The paper curates a collection of transcriptome datasets from viral respiratory inoculation and vaccination studies to enable reanalysis of transcriptional responses in blood and nasal samples.

The paper introduces HiddenFoot, a probabilistic model to infer TF, nucleosome, and Pol II occupancy from single-molecule data, revealing binding dynamics and heterogeneity in mouse, Drosophila, and human cells.

This paper introduces Trias, a generative language model that designs mRNAs with high protein output by learning codon usage rules from natural sequences.

The paper identifies two types of antimicrobial resistant bacteria in the gut microbiome after antibiotic treatment and shows how one type persists and reshapes the microbial community.

This study uses Fiber-seq to analyze TE regulatory potential in maize, revealing epigenetic patterns and gene interaction mechanisms.

The paper examines nucleosome positioning and sensitivity in the purple sea urchin genome, revealing unique patterns distinct from other eukaryotes.

The paper introduces CapTrap-seq, a long-read sequencing method for zebrafish, improving transcriptome accuracy by capturing full-length transcripts and novel spliced isoforms.

This paper introduces BasCoD, a framework for selecting optimal backgrounds in contrastive dimension reduction, improving contrast and interpretability in single-cell data.

The paper identifies DNA-methylation markers at birth and childhood associated with lung function and reveals sex- and genetics-related pathways linked to asthma and lung development.