Silas Maniatis

The paper introduces SPACE-Tag, a spatial CUT&Tag method for chromatin profiling, and applies it to the mouse brain to reveal age-related chromatin and transcriptome changes.

Songbird is a single cell whole genome sequencing copy number caller that detects whole genome duplication and outperforms existing tools in breakpoints identification and true copy number detection.

The paper identifies microglia subsets in ALS brain and spinal cord, finding an undifferentiated phenotype and enrichment of interferon response microglia in aggressive cases.

This paper introduces NTT-seq, a method to measure multiple chromatin features at single-cell resolution, and demonstrates its application in immune cells.

PySeq2500 converts the HiSeq 2500 into an open platform for programmable fluidics and imaging, enabling automated multi-day workflows for multiplexed imaging of biological samples.

Splotch aligns spatial transcriptomics data across tissue sections and timepoints to improve gene expression estimates and study optimal experimental design.

Analysis of the ALS spinal cord using Spatial Transcriptomics reveals spatiotemporal dynamics of disease driven gene regulation.