Robert P. Zinzen

Evolution of CTCF underlies the establishment of loop extrusion as a predominant chromatin folding mechanism in vertebrates

The paper investigates the evolution of CTCF's role in chromatin organization across species, finding that vertebrate CTCF enables loop extrusion but requires additional factors for full genome architecture.

The insect brain is specified by a conserved transcriptional program distinct from the segmental CNS

The paper identifies brain-specific transcription factors in insect neuroblasts, revealing a distinct regulatory program for the insect brain compared to the posterior CNS.

RoCK and ROI: Single-cell transcriptomics with multiplexed enrichment of selected transcripts and region-specific sequencing

RoCK and ROI improves single-cell transcriptomics by targeting specific transcripts and regions, enhancing detection of critical biological features.

Evolutionarily conserved transcriptional regulators control monoaminergic neuron development

The paper identifies conserved transcriptional regulators in monoaminergic neuron development across species using single-cell genomics and spatial transcriptomics.

Dissecting the role of RNA-binding proteins in early herpes simplex virus 1 transcription using acute protein depletion

The paper investigates the role of five RNA-binding proteins in HSV-1 transcription and their impact on viral replication, finding that SPT5 is essential for immediate-early gene expression while SFPQ has a different regulatory role.

Differential regulation of the proteome and phosphosproteome along the dorso-ventral axis of the early Drosophila embryo

The paper investigates proteome and phosphoproteome changes along the dorso-ventral axis of Drosophila embryos, revealing differential regulation and functional roles of proteins and phosphorylation events.

Non-autonomous Vnd acts with autonomous Appl during mushroom body axon growth in Drosophila

This study shows that vnd is more critical than Appl for MB axon outgrowth, with vnd acting non-autonomously.

A gene expression atlas of embryonic neurogenesis in Drosophila reveals complex spatiotemporal regulation of lncRNAs.

The paper creates a spatiotemporal gene expression atlas of Drosophila embryonic neurogenesis, revealing dynamic lncRNA expression patterns and cell type-specific gene regulation.

Determinants of Transcription Initiation Directionality in Metazoans

The paper investigates transcription initiation directionality in metazoans, finding species-specific sequence asymmetry and independent initiation events at promoters and enhancers.

The Drosophila Embryo at Single Cell Transcriptome Resolution

The paper generates a single-cell transcriptomic map of Drosophila embryos, identifies spatial gene expression patterns, and discovers patterned long non-coding RNAs.

Cell fixation and preservation for droplet-based single-cell transcriptomics

This paper introduces a method for fixing and preserving cells for single-cell transcriptomics, demonstrating its effectiveness across species and tissue types.