Single-Cell Analysis of The Transcription Factor Controlled Early T Cell Differentiation Dynamics and Trajectory Topology

The single cell expression profiles of mouse bone marrow derived early T cells with perturbations Examination of single-cell gene expression profile of bone-marrow derived early pro-T cells. Experiment was performed using droplet-based 3′ end RNA expression profiling using Chromium Single Cell 3′ Reagent Kits v3 according to manufacturer’s protocol (10x Genomics), with the different biological replicates tagged with Totalseq-A hashtags (Biolegend). The cDNA library was sequenced on Illumina Novaseq or HisSeq4000 for 400-500 million reads, and tag library and gRNA library (if applicable) on HiSeq4000 for 20 million reads, both in pair-end mode following manufacturer's instructions.