Cecilia Lanny Winata

Enhancer-mediated metabolic pre-patterning defines trabecular cardiomyocyte identity prior to morphogenesis

The paper identifies an enhancer, -6.8got2b, critical for trabecular cardiomyocyte development in zebrafish and shows its conservation and function in humans.

scRNA-seq reveals the diversity of the developing cardiac cell lineage and molecular building blocks of the primary pacemaker

The paper uses scRNA-seq to analyze zebrafish heart development, identifying 18 cell populations and two genes critical for pacemaker function and heart rate regulation.

xcore: an R package for inference of gene expression regulators

xcore is an R package that models transcription factor activity using ChIP-seq signatures and gene expression data, demonstrating improved biological relevance in case studies.

Profiling subcellular localization of nuclear-encoded mitochondrial gene products in zebrafish

The paper profiles subcellular localization of nuclear-encoded mitochondrial gene products in zebrafish by analyzing RNA from different cellular fractions and quantifying transcriptomic changes in a chchd4a-/- mutation.

Integrated annotation and analysis of genomic features reveal new types of functional elements and large-scale epigenetic phenomena in the developing zebrafish

The paper creates a central repository for zebrafish developmental genomics data, identifies new cis-regulatory elements, and compares regulatory elements between zebrafish and mouse.

Transcriptome profile of the zebrafish atrioventricular canal reveals molecular signatures of pacemaker and valve mesenchyme

The paper profiles the transcriptome of the zebrafish atrioventricular canal to identify molecular signatures of pacemaker and valve mesenchyme, revealing conserved features with mammalian AV node and cardiac valves.

Adar-mediated A-to-I editing is required for establishment of embryonic body axes in zebrafish

This study shows that Adar-mediated A-to-I editing is essential for establishing antero-posterior and dorso-ventral axes in zebrafish embryos.

Dynamics Of Cardiomyocyte Transcriptome And Chromatin Landscape Demarcates Key Events Of Heart Development

The paper analyzes transcriptomic and chromatin accessibility changes in zebrafish cardiomyocytes during heart development to identify key regulatory networks and their disruption in mutant lines.

N6-methyladenosine dynamics during early vertebrate embryogenesis

This study examines m6A dynamics during early vertebrate embryogenesis, finding increased m6A in polyadenylated mRNA and its association with translational efficiency and RNA degradation.