Human breast cancer PDTX models bulk and single cell RNA sequencing

This dataset includes information relevant to the following manuscript from the labs of Prof. Carlos Caldas (University of Cambridge), and Dr. Long V. Nguyen (Princess Margaret Cancer Centre, University Health Network):

Nguyen LV et al. Dynamics and plasticity of human breast cancer single cell-derived clones. Under consideration for publication.

Bulk RNA sequencing raw count matrices are provided (RawCounts.csv) along with the normalized count matrices (LogCPMNormCounts.csv).

Single cell RNA sequencing count matrix processed from R package metacell is provided (mat.pdx_LN_v2_filt.Rda), along with the mc and mc2d files with information on metacell partitions (mc.pdx_LN_v2_filt.Rda and mc2d.pdx_LN_v2_filt.Rda).

Single cell RNA sequencing count matrices processed using Seurat are also provided separately for each PDTX model analysed (STG139.rds, STG201.rds, AB040.rds and IC07.rds).

Code and information on data analysis is provided for reviewers in our unpublished manuscript and on Github (https://github.com/cclab-brca/clone-dynamics).