Peter Chovanec

The paper develops a k-segment constrained HMM for LOH detection in sparse single-cell WGS data, achieving high recall and precision.

The paper maps Cas9-induced sister chromatid exchange (SCE) across genomic targets using sci-L3-Strand-seq, showing local SCE enrichment and context-dependent recombination at repetitive loci.

The paper investigates spontaneous mitotic crossovers and finds they are driven by lesions incompatible with NHEJ, instead using HR through SSB-to-DSB conversion, with error-free recombination decoupled from mutational SVs.

This paper introduces sci-L3-Strand-seq, a method for high-throughput mapping of mitotic crossover and genome instability events in single cells, and demonstrates its ability to distinguish crossover types and explore genomic features.

The paper investigates VH-replacement in B-cell development, finding it targets non-pairing productive VDJ rearrangements to reshape the antibody repertoire.

The paper develops RD-SPRITE to map RNA-DNA and RNA-RNA interactions in 3D nuclear structures, revealing RNA's role in forming compartments that regulate nuclear functions.

The paper analyzes promoter interactions in human pluripotent states to reveal hierarchical differences in genome organization using a network-graph approach.