Robert Krautz

The paper maps RNA-DNA interactions in 16 human cell types, showing cell-type-specific and dynamic networks that correlate with gene regulation and disease traits.

The paper introduces nucCAGE and PRIME to identify active cis-regulatory elements with high sensitivity and applies them to create a cell-type-resolved CRE atlas.

The paper introduces DeepCompARE, an in silico ablation framework to analyze TF cooperativity, finding most TF motifs are independent with defined synergy and redundancy effects.

The paper introduces Targeted DamID to detect cell-type specific histone modifications in vivo across different model organisms.

The paper identifies transcription factor expression as the main factor driving variability in gene co-activity domains using human expression data.

The paper examines the temporal response to maternal pulmonary immune activation across maternal and fetal organs using multi-omics, finding that the placenta protects the fetus through metabolic adaptations rather than immune responses.

The paper characterizes transposon-derived regulatory elements in mouse embryonic stem cells, showing their role in gene regulation and pluripotency programs.

The paper introduces NanoDam, a method to identify temporal transcription factors in Drosophila, finding Homeobrain and Scarecrow as conserved factors in both central brain and visual system development.