Cranos Williams

Enhancer Activity-informed Gap GEne Regulatory Network (EAGER) to model Drosophila gap gene expression on the entire anterior-posterior (A-P) axis

The paper introduces EAGER, a model that incorporates enhancer activity to predict gap gene expression across the entire Drosophila AP axis, and validates it using Kr mutants.

KeySDL: Sparse Dictionary Learning for Keystone Microbe Identification

KeySDL identifies keystone microbes using sparse dictionary learning and GLV dynamics assumptions, enabling accurate predictions from limited data.

Spatiotemporal dynamics of NF-κB/Dorsal inhibitor IκBα/Cactus in Drosophila blastoderm embryos

This study visualizes Cactus dynamics in Drosophila embryos using LlamaTag and optical techniques, revealing nuclear localization and biophysical parameters of the NF-κB pathway.

Dynamics of BMP signaling in the early Drosophila embryo

The paper examines the dynamics of BMP signaling in Drosophila embryos and finds that target gene activation persists even after the signal is lost, suggesting a memory mechanism.

Modeling cross-regulatory influences on monolignol transcripts and proteins under single and combinatorial gene knockdowns in Populus trichocarpa

The paper develops a computational model to estimate monolignol transcript and protein abundances under gene knockdowns, showing improved accuracy in predicting responses to single and combinatorial perturbations.

Stem-cell-ubiquitous genes spatiotemporally coordinate division through regulation of stem-cell-specific gene networks

The paper identifies a stem-cell-ubiquitous gene, TCX2, that coordinates division across different stem cell types in Arabidopsis by regulating stem cell-specific networks.

An Inference Approach Combines Spatial And Temporal Gene Expression Data To Predict Gene Regulatory Networks In Arabidopsis Stem Cells

This study combines spatial and temporal gene expression data with computational methods to predict gene regulatory networks in Arabidopsis stem cells, identifying PERIANTHIA as a key regulator of quiescent center function.