Jop Kind

This paper introduces Waldo, a genetic barcoding system that links live-cell imaging phenotypes to single-cell sequencing data for the same cells.

The paper identifies genome-lamina reorganization preceding long gene activation in mouse corticogenesis and links it to MeCP2 binding.

The paper introduces Dam&ChIC, a method for time-resolved chromatin profiling in single cells, revealing that genome-lamina detachment precedes H3K27me3 accumulation during X-chromosome inactivation.

The paper shows that genome-lamina interactions are reconfigured during limb development to prime regulatory domains for gene activation and support cell-fate decisions.

MAbID enables simultaneous profiling of multiple chromatin states in single cells, revealing multifactorial chromatin state changes during neural differentiation.

This study identifies higher-order coordination of DNA repair proteins in single cells by analyzing their genome-wide localization using DamID and ChIC sequencing.

This study identifies H3K27me3's role in regulating genome-nuclear lamina interactions and allelic asymmetry during early mouse embryogenesis through single-cell LAD profiling and chromatin state analysis.

This paper introduces EpiDamID, a method to profile histone modifications and transcriptomes at single-cell resolution, and demonstrates its application in mouse and zebrafish systems.

This paper introduces a method to simultaneously measure protein-DNA contacts and transcriptomes in single cells, revealing how chromatin states and genome organization influence gene expression.

The paper shows that chemically-defined conditions and signaling molecules can generate primitive endoderm-like cells and support post-implantation-like epiblast development in vitro.

The paper introduces damC, a method to measure chromatin structure in vivo without crosslinking or ligation, confirming TADs and CTCF loops and showing chromatin rigidity below 5 kilobases.