Ingrid Plajzer-Frick

Uncovering Hidden Enhancers Through Unbiased In Vivo Testing

The paper identifies hidden enhancers in mouse embryos that are not detected by conventional chromatin profiling methods, highlighting a significant gap in enhancer discovery.

Mutagenesis Sensitivity Mapping of HumanEnhancers In Vivo

The paper maps the mutagenic sensitivity of human enhancers in vivo by systematically mutating enhancer sequences and using predictive modeling to identify critical nucleotides.

Massively parallel reporter assays and mouse transgenic assays provide complementary information about neuronal enhancer activity

The paper combines massively parallel reporter assays and mouse transgenic assays to study the functional impact of non-coding variants on neuronal enhancer activity, finding strong correlations and additional pleiotropic effects.

Cell Type- and Tissue-specific Enhancers in Craniofacial Development

The paper identifies 14,000 human craniofacial enhancers across developmental stages and shows 56% are conserved in mice, providing cell type- and stage-specific activity profiles.

Genome-Wide Fetalization of Enhancer Architecture in Heart Disease

The paper identifies widespread epigenomic changes in idiopathic dilated cardiomyopathy, showing a shift toward fetal-like enhancer states and providing a data resource for further study.

Topologically Associating Domain Boundaries are Commonly Required for Normal Genome Function

This study shows that deleting TAD boundaries in mice often causes molecular or developmental phenotypes, highlighting their importance for genome function.

A gene desert required for regulatory control of pleiotropic Shox2 expression and embryonic survival

This study identifies a gene desert critical for Shox2 regulation and embryonic survival through enhancer networks in mouse development.

The changing mouse embryo transcriptome at whole tissue and single-cell resolution

The paper quantifies the mouse embryo transcriptome from E10.5 to birth using whole-tissue and single-cell RNA-seq, identifying key gene expression patterns and cell types.

A cross-organism framework for supervised enhancer prediction with epigenetic pattern recognition and targeted validation

This paper develops a cross-organism framework for enhancer prediction using Drosophila STARR-seq data and supervised machine learning, validated in mouse and human with 153 enhancers.

Systematic mapping of chromatin state landscapes during mouse development

The paper systematically maps chromatin state landscapes during mouse development by profiling histone modifications across 72 tissue-stages, identifying dynamic enhancers and transcriptional regulators.

Heterozygous mutation to Chd8 causes macrocephaly and widespread alteration of neurodevelopmental transcriptional networks in mouse

This study shows that heterozygous Chd8 mutation in mice causes macrocephaly and widespread transcriptional changes in neurodevelopmental networks, similar to human CHD8 mutations.