Jackson Loper

This study examines enhancer dynamics and spatial organization in the human spinal cord to understand cellular state transitions and identity.

The paper identifies distinct anatomical and functional corticospinal inputs to different spinal neuron types in mice, revealing homology to primate organization.

This study develops blind demixing methods and a neural network to recover neuronal morphology from barcode imaging data, showing accurate recovery is feasible with sufficient barcode signal density.

BarDensr demixes spatial transcriptomics data by modeling the imaging process and using convex optimization, achieving state-of-the-art signal recovery in dense or low-resolution data.

The paper introduces an ambiguity index to measure kinetic traps in RNA folding and finds it better distinguishes bound from unbound RNA molecules using comparative structures than minimum free energy predictions.

The paper introduces the Markov link method to predict measurements from different experimental techniques and evaluates it on single-cell RNA sequencing data.