Bomyi Lim

The paper introduces Live D-seq, a method for longitudinal, non-destructive single-cell RNA sequencing, and demonstrates its ability to track cellular dynamics over time.

This study shows insulators dynamically enhance enhancer-promoter coordination in Drosophila embryos through looping and coordination of transcriptional bursts.

This study shows that enhancer-promoter configurations in Drosophila embryos affect transcriptional dynamics, with downstream enhancer positioning reducing mRNA output by 70%.

SCO-pH enables high-throughput single-cell acidification analysis by compartmentalizing cells in microfluidic droplets and measuring extracellular pH changes to distinguish metabolic states.

The paper analyzes transcriptional bursting in Drosophila embryos to understand how spatial gene expression patterns are established despite variability in transcriptional activity.

The paper identifies TRE motifs as indirect MYC binding sites that synergize with AP-1 at enhancers, leading to transcriptional rewiring in cancer.

This study investigates how LIF signaling perturbations affect Sox2 transcriptional dynamics in mESCs, revealing that reduced Sox2 expression, not complete loss, drives pluripotency loss.

The paper investigates the spatiotemporal requirements for transcription activation by analyzing enhancer-promoter interactions in living Drosophila embryos using transvection and 3D imaging.

This study examines how halving Kruppel dosage affects even-skipped transcriptional dynamics in Drosophila embryos, revealing nonlinear relationships between TF dosage and developmental phenotypes through direct and indirect interactions.

The paper investigates how multiple TF binding sites modulate enhancer activity in Drosophila embryos, showing that cooperative binding increases transcriptional output and affects promoter dynamics.

The paper investigates allelic competition in Drosophila embryos, finding that homozygous alleles produce fewer RNAs than hemizygous alleles due to transcriptional machinery interference.

This study shows that the nuclear to cytoplasmic ratio regulates zygotic transcription in Drosophila through multiple mechanisms, independent of cell cycle length.

The paper develops a semi-supervised learning framework to integrate heterogeneous biological data and demonstrates its application in analyzing Drosophila pattern formation.

The paper shows that Cactus promotes Toll signals in Drosophila embryos by modulating Dorsal nuclear localization, revealing differential behavior of the Dorsal gradient in response to Cactus concentrations.