Aaron F. Straight

This study reconstitutes vertebrate meiotic kinetochores to identify conserved factors essential for chromosome segregation in mammalian oocytes.

The paper uses a complete diploid human genome to study centromeric chromatin organization, revealing that DNA methylation regulates centromere structure and plasticity.

The paper introduces dimelo-toolkit, a Python package for analyzing multimodal long-read epigenetic data, demonstrating its use with a novel DiMeLo-seq protocol to study chromatin state in GM12878 cells.

This study identifies a cell cycle-dependent phosphorylation mechanism that regulates M18BP1 binding to CENP-A nucleosomes, controlling CENP-A assembly during interphase.

This study identifies the role of H3K9 methyltransferases in maintaining centromere compartmentalization by regulating CENP-A and heterochromatin distribution.

The paper identifies and maps RNAs associated with human centromeres using ChAR-seq in three cell lines, revealing three categories of centromere-bound RNAs.

DiMeLo-cito improves DiMeLo-seq by eliminating wash steps, enabling mitotic protein-DNA interaction analysis in diploid human cells and revealing CTCF bookmarking.

This study shows that centromeric chromatin is mechanically resilient and distinct from pericentromeric chromatin, which deforms under force, with CCAN components not affecting pericentromere stretching.

The paper introduces DiMeLo-seq, a method for mapping protein-DNA interactions using long-read sequencing, and provides a protocol and analysis tool.

The paper presents high-quality genomes and chromatin structure analyses of frogs, revealing conserved ancestral chromosomes and stable genome evolution.

The paper maps ncRNA-chromatin interactions in human embryonic stem cells and shows that ncRNAs predominantly interact with nearby genes.

DiMeLo-seq maps protein-DNA interactions genome-wide with single-molecule resolution by methylating DNA near binding sites and using long-read sequencing.

The paper shows CENP-N promotes centromere-specific nucleosome stacking and higher order chromatin structures in vitro and in cells.

The paper presents the first de novo repeat discovery and annotation of a complete human reference genome, identifying novel satellite arrays and characterizing new classes of complex repeats.

The paper presents a comprehensive analysis of fully assembled human centromeres, revealing their architecture, variation, and evolutionary dynamics at high resolution.

This study shows that reducing genomic DNA content delays zygotic genome activation in Xenopus embryos, supporting the nuclear-to-cytoplasmic ratio model.

This study identifies and characterizes centromeric sequences in Xenopus laevis using CENP-A ChIP-seq and k-mer analysis, revealing diverse repeat sequences and mapping centromere positions on each chromosome.

This paper introduces ChAR-seq, a method to map RNA-to-DNA contacts genome-wide, identifying chromatin-bound RNA targets such as nascent transcripts and trans-associated RNAs.

This study introduces tFCS to measure mesoscale conformational dynamics of single molecules, showing its ability to detect DNA compaction and protein-mediated interactions.