A Systematic Comparison of Single Cell RNA-Seq Methods
Joshua Levin,
Senior Scientist/Group Leader,
The Broad Institute of MIT and Harvard
A multitude of single-cell RNA sequencing methods have been developed in
recent years, with dramatic advances in scale and power, and enabling
major discoveries and large scale cell mapping efforts. We directly
compared seven methods for single cell and/or single nucleus profiling
from three types of samples – cell lines, peripheral blood mononuclear
cells and brain tissue. To analyze these datasets, we developed and
applied scumi, a flexible computational pipeline that can be used for
any scRNA-seq method. We evaluated the methods for both basic
performance and for their ability to recover known biological
information in the samples.
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