Gulhan Kaya

The paper assembles chromosome-scale diploid genomes of prairie and meadow voles using a single-library approach, identifying a prairie-vole-specific duplication of Avpr1a associated with pair bonding.

The paper investigates how cis-regulatory elements in human segmental duplications contribute to expression divergence, finding that duplicated CREs show moderate functional divergence and may drive human-specific regulatory patterns.

CiFi improves Hi-C analysis by combining 3C with PacBio HiFi sequencing, enabling better coverage in repetitive regions and low-input samples.

The paper identifies human-specific gene expansions linked to brain evolution by analyzing genome sequences and functional models in zebrafish.

This paper uses zebrafish to study SRGAP2 duplication, showing its role in microglia and visual system development, with phenotypes resembling human conditions.

The paper evaluates CRISPR gene-editing tools in zebrafish by comparing in vivo editing efficiencies with computational predictions and analyzing control embryos for spurious effects.

The paper investigates differential expression of human duplicated genes and finds cis-regulatory divergence contributes to novel expression patterns in recent gene duplicates.

The paper develops a high-throughput phenotyping protocol for zebrafish larvae to assess autism-related mutant models, identifying morphological and behavioral defects in syngap1b and slc7a5 mutants.

The paper presents a gapless, telomere-to-telomere assembly of the human X chromosome using ultra-long-read nanopore sequencing and complementary technologies.