Sunnie Grace McCalla

The paper introduces MERLIN+P+TFA to robustly estimate transcription factor activity and infer gene regulatory networks from bulk and single-cell data, showing improved accuracy in yeast and mammalian systems.

The paper identifies that PVY temporally regulates NbTPS1, which influences aphid attraction through volatile organic compounds.

The paper benchmarks eleven network inference methods on scRNA-seq datasets to evaluate their performance in recovering gene regulatory networks.

This paper introduces scMTNI, a framework to infer cell type-specific gene regulatory networks on cell lineages using scRNA-seq and scATAC-seq data, showing its effectiveness on simulated and real datasets.

The paper develops a modular differentiation system to generate diverse human hindbrain and spinal neurons and uses computational methods to identify region-specific transcriptomic patterns.

This study identifies reprogramming checkpoints in iPSC generation by analyzing single-cell transcriptomes and reveals key gene interactions and regulatory mechanisms.