Danang Crysnanto

This study identifies Artemis as a regulator of PRINS editing, showing that modulating Artemis improves insertion efficiency and specificity for genomic engineering.

The paper compares three pangenome construction methods, showing their impact on variant representation and analysis in a bovine super-pangenome.

The paper constructs structural variant-based pangenomes from haplotype-resolved bovine assemblies and identifies variants potentially affecting phenotype.

The paper constructs a multi-assembly graph from bovine genomes to uncover non-reference sequences, revealing novel transcripts and polymorphic sites.

The paper characterizes a haplotype-reference panel for low-pass sequencing genotyping in Swiss Large White pigs, showing high concordance with microarray genotypes and significant genetic differentiation between lines.

The paper identifies a deletion in the BOLL gene in pigs causing defective acrosomes and subfertility.

The paper develops a variation-aware reference graph for cattle to improve read mapping and variant discovery by incorporating breed-specific alleles.

The paper identifies a 63-bp insertion in the KIF21A gene as the causal mutation for arthrogryposis multiplex congenita in pigs.

The paper identifies a recessive allele in WDR19 associated with reduced semen quality and male fertility in cattle, showing it activates cryptic splicing and reduces protein expression.

This study uses whole-genome sequencing of 49 Original Braunvieh cattle ancestors to assess genomic diversity, inbreeding, and selection signatures, finding higher diversity and lower inbreeding compared to European breeds.

This study compares graph-based and linear reference-based methods for variant genotyping in cattle, finding Graphtyper more accurate and sensitive than GATK and SAMtools.