Interactive VISION reports for "KP-Tracer Tumors from study "Lineage Recording Reveals the Phylodynamics, Plasticity and Paths of Tumor Evolution"

This repository contains VISION reports for the KP-Tracer tumors described in the manuscript "Lineage Recording Reveals the Phylodynamics, Plasticity, and Paths of Tumor Evolution" (Yang*, Jones*, et al bioRxiv 2021).

In this study, single-cell lineage tracing was performed in the KP autochthonous mouse model of non-small-cell lung cancer. Tumors were initiated with Cre recombinase (and optionally an additional gRNA targeting the other well-studied tumor suppressors) and allowed to grow for approximately 4-6 months at which point mice were sacrificed and tumors harvested. After purifying cancer cells by fluorescent markers, cells were profiled with the 10X chromium platform and four libraries were collected: a single-cell transcriptome library, a single-cell lineage tracing library, a single-cell multiplexing library, and a single-cell lenti-barcode library (used for confirming the clonality of tumors). Data was processed using the 10X Cellranger suite and custom pipelines as described in the manuscript above.

For interactive work with these objects, users must first install VISION from Github (https://github.com/YosefLab/VISION) and then launch these reports either locally or on a server. For detailed instructions on how to launch reports, and create new reports for additional clones, please view our tutorials in our public reproducibility repository at https://github.com/mattjones315/KPTracer-release.