Yuyan Cheng

X-SPEAR improves spatial transcriptomics panel design by integrating detection-aware marker selection and probe-level off-target assessment, achieving higher accuracy with fewer genes.

This study uses scRNA-seq to analyze retinal cell-type-specific responses to bacterial infection in a mouse model, identifying iron dysregulation and hypoxia as key features.

The paper identifies 46,802 enhancers and 164 psychiatric disorder variants with regulatory effects in the developing cortex and organoids using massively parallel reporter assays and deep learning.

The paper processes single-nuclei multi-omics data from 388 human brains to identify regulatory elements and build cell-type networks, revealing changes in aging and neuropsychiatric disorders.

The paper generates a molecular neuroanatomical map of the human prefrontal cortex using spatial transcriptomics and single nucleus RNA-sequencing, revealing novel spatial domains and cell-cell interactions linked to psychiatric disorders.

The paper uses single nuclear RNAseq and epigenetic profiling to identify molecular changes and cell-type specific signatures in ASD, linking them to genetic risk factors.

The paper uses single-cell genomics to identify shared and disease-specific cell states and gene regulatory networks in three dementias, revealing distinct neuroimmune mechanisms and potential therapeutic targets.

This study identifies a distinct CNS regeneration program activated by integrin expression in spinal cord sensory neurons, differing from PNS regeneration and involving ubiquitination, autophagy, and signaling pathways.

The paper identifies REST/NRSF as a suppressor of CNS axon regeneration using systems biology approaches and validates its role through genetic manipulations.

The paper identifies four ATF/CEBP transcription factors that drive injury-induced neurodegeneration of retinal ganglion cells and shows their role in glaucoma.