Jennifer Balacco

The paper generates high-quality genome assemblies for two manta and devil ray species and identifies structural variations linked to pelagic adaptation.

The paper identifies convergent gene losses and expression changes associated with blood-feeding loss in non-blood-feeding mosquitoes.

The paper presents a chromosome-level genome assembly for the European leaf-toed gecko, providing a high-quality reference for studying genome evolution and sex chromosome dynamics.

The paper investigates hatching failure in Alala, the Hawaiian crow, after a near-extinction event, identifying recessive lethal haplotypes as the main cause.

This paper presents the first fully phased, diploid, telomere-to-telomere genome of the zebra finch, revealing new genes and structural features.

The paper assembles and characterizes 2,110 human centromeres, revealing novel haplotypes, mobile element insertions, and mutation rate variation across chromosomes.

460 haplotypes from 230 genomes, selected to maximize common-variant coverage, capture 99.43% of All of Us common small variants and halve structurally unreliable regions and base errors versus HPRC1.

This study investigates speciation in boobies through genomic analysis, finding introgression, divergence patterns, and a neo-sex chromosome linked to coloration diversity.

This paper introduces CAD-C, a new chromatin conformation capture method that improves resolution and efficiency over existing techniques like Micro-C and Hi-C.

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

The paper identifies genomic and transcriptomic changes associated with chromosomal instability and seasonal brain size plasticity in the Eurasian common shrew.

The paper presents the first chromosome-level genome assembly of the Brazilian merganser, revealing genomic features and population history insights.

The paper analyzes genomic diversity loss in whooping cranes despite population recovery, finding 70% genetic diversity loss and increased inbreeding.

The paper introduces rdeval, a tool for efficiently evaluating and visualizing sequencing read metrics, showing improvements in read quality and genome assembly with PacBio data.

The paper examines sex chromosomes in 14 elasmobranch species, identifying conserved X chromosomes and a shared candidate gene for sex determination.

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.

The paper presents a scalable pipeline for reference genome assembly and evaluation, demonstrating its effectiveness across 51 vertebrate species using Galaxy.

The paper analyzes single-cell long-read mRNA isoform regulation across mouse brain regions, cell types, and development, finding pervasive isoform variability and cell-type specific splicing patterns.

The paper presents a pangenome for the barn swallow and identifies genes under selection linked to synanthropy and domestication traits.

The paper benchmarks DNA preservation methods for long-read and long-range sequencing across vertebrates, finding that optimal methods vary by taxa, tissue, and application.

The paper introduces SnISOr-Seq, a method for single-nuclei isoform RNA sequencing, and finds distinct combination patterns of transcript elements in human brain cell types.

The paper develops a pipeline for mitochondrial genome assembly and identifies errors and novel duplications in reference mitogenomes.

The paper generates a high-quality reference genome for the vaquita and analyzes its demographic history, revealing long-term population stability and low genetic diversity.