Jakob El Kholtei

The paper introduces a whole-embryo spatial transcriptomics method and generates a comprehensive gene expression and chromatin accessibility atlas in zebrafish embryos.

This study uses single-cell RNA-seq to show that many liver genes are both zonated and rhythmic, with multiplicative space-time effects, revealing spatio-temporal compartmentalization of liver function.

This study provides the first single-cell RNA-seq time course of zebrafish brain development, revealing the emergence of neuronal diversity and distinct neurogenic regulatory patterns across developmental stages.

MERLoT reconstructs complex lineage trees from scRNA-seq data and imputes temporal gene expression profiles using simulated and real datasets.