Tom Brown

The paper presents the chromosome-level genome assembly of Valencia hispanica, a critically endangered fish, to support conservation and ecological studies.

The paper presents a high-quality genome assembly for the Seabra's wing-gland bat, Cistugo seabrae.

This study integrates genomics and transcriptomics to identify molecular changes in vampire bats adapted to blood-feeding, revealing shifts in gene expression and function across multiple biological pathways.

The Vertebrate Genomes Project Phase I provides high-quality reference genomes for 816 species, enabling evolutionary and conservation insights across vertebrates.

This study presents seven reference genomes of side-necked turtles, revealing chromosomal dynamics, sex chromosome evolution, and molecular mechanisms underlying skeletal innovation and cancer resistance.

The paper identifies convergent and lineage-specific genomic changes in sugar-feeding birds through genome and transcriptome analyses, revealing adaptive mechanisms in metabolic pathways.

The paper presents the chromosome-level genome assembly of Androsace saussurei, a plant adapted to extreme alpine environments.

The paper presents the chromosome-level genome assembly of Stigmatoteuthis arcturi, providing insights into the evolutionary biology of deep-sea squids.

The paper demonstrates long-read sequencing and genome assembly of ethanol-preserved samples, including challenging organisms like the maned sloth, achieving a 3.1 Gb assembly.

The paper identifies and resolves false population size peaks in PSMC analyses, showing they result from parameter settings and not true population dynamics.

The paper presents the chromosome-scale assembly of the giant Pleurodeles waltl genome, revealing insights into its expansion and regeneration-related genes.

The paper presents haplotype-resolved genomes for five sea turtle species, revealing conserved synteny and divergence hotspots linked to immune and sensory genes, and population expansion during the Pleistocene.

This paper presents a chromosome-level, haplotype-resolved genome assembly for the Eurasian minnow, revealing haplotype diversity and structural variations.

The paper investigates the evolutionary history of Triturus chromosome 1, revealing conserved gene content and unique phylogenetic patterns in its balanced lethal system.

This paper presents chromosome-scale genome assemblies and regulatory element annotations for planarians, revealing conservation of regulatory regions despite rapid structural divergence.

The paper describes the European Reference Genome Atlas (ERGA) pilot project, which tests a decentralized model for producing high-quality reference genomes across 98 European species.

The paper identifies bats as a hotspot for horizontal transfer of DNA transposons, finding over 200 putative elements and shared transposons across mammals and reptiles.

The paper demonstrates that PCR errors significantly affect UMI-based absolute counting in sequencing data and proposes a solution using homotrimeric nucleotide blocks to correct these errors.

This study shows Spt4 regulates RNA polymerase II elongation and nucleosome positioning in yeast by facilitating movement through the +2 nucleosomal barrier.

The paper investigates the transcriptional response to acute stress in yeast, identifying two components: dynamic +1 nucleosome positioning and global Pol2 stalling leading to early transcription termination.

This paper introduces SNU-Seq and sf4sU-Seq methods to map nascent transcripts at single-nucleotide resolution, revealing transcriptional responsiveness in an epigenetically primed human genome.

The paper investigates the relationship between H3K4me3 and transcription, finding no direct instructive or informative link between the two on a genome-wide scale in budding yeast.

The paper shows antisense transcription affects sense transcript dynamics through a chromatin signature, with effects observed in yeast and human genes.