Yidan Pan

Chromosomal instability shapes spatial and temporal phenotypic diversity in a malignant peripheral nerve sheath tumour

This study uses single-cell and spatial multi-omics to analyze a malignant peripheral nerve sheath tumor, revealing chromosomal instability drives phenotypic diversity and spatial-temporal evolution.

Spatial control of genome editing activity enables localized immunotherapy

This paper demonstrates a magnetically gated CRISPR platform that spatially confines genome editing to target tissues, enabling localized immunotherapy in a murine tumor model.

Arborist: Prioritizing Bulk DNA Inferred Tumor Phylogenies via Low-pass Single-cell DNA Sequencing Data

Arborist improves tumor phylogeny reconstruction by integrating bulk DNA-seq and low-pass scDNA-seq data, outperforming existing methods on simulated and biological datasets.

The Need for Transfer Learning in CRISPR-Cas Off-Target Scoring

The paper develops a Siamese convolutional neural network for CRISPR-Cas off-target scoring and shows that transfer learning improves performance on a curated benchmark dataset.

TRACE-Seq Reveals Clonal Reconstitution Dynamics of Gene Targeted Human Hematopoietic Stem Cells

The paper introduces TRACE-Seq, a method to track clonal reconstitution of gene-targeted human hematopoietic stem cells using barcoded AAV6 donor templates in immunodeficient mice.