Francesco E. Emiliani

BASELINE: A CRISPR Base Editing Platform for Mammalian-Scale Single-Cell Lineage Tracing

BASELINE uses CRISPR base editing to enable high-resolution single-cell lineage tracing in mammalian systems, recording over 4300 bits of information with high fidelity across 40 cell divisions.

Hierarchical Lineage Tracing Reveals Diverse Pathways of AML Treatment Resistance

This study uses FLARE to track AML cell lineage evolution under AraC treatment, revealing resistance mechanisms and validating them in a clinical cohort.

Hierarchal single-cell lineage tracing reveals differential fate commitment of CD8 T-cell clones in response to acute infection.

This study uses single-cell lineage tracing to show that CD8 T-cell clones exhibit differential fate commitment during acute infection, with some clones adopting memory or effector biases over time.

iSCORED: nanopore-based random genomic sampling for intraoperative molecular diagnosis

iSCORED enables rapid, unbiased CNV detection and methylation classification in brain tumors using Nanopore sequencing, achieving 100% concordance with standard methods.

Circuit-seq: Circular reconstruction of cut in vitro transposed plasmids using Nanopore sequencing

Circuit-seq uses Nanopore sequencing to rapidly and affordably sequence plasmids, enabling accurate and scalable validation of recombinant DNA.