Project name: The comparison of high-throughput single-cell RNA-seq methods

Description: Here we compare the performance of these three approaches (inDrop, Drop-seq and 10x) using the same kind of sample with a unified data processing pipeline. We generated 2-3 replicates for each method using lymphoblastoid cell line GM12891. The average sequencing depth was around 50-60k reads per cell barcode. We also developed a versatile and rapid data processing workflow and applied it for all datasets. Cell capture efficiency, effective read ratio, barcode detection error and transcript detection sensitivity were analyzed as well.Overall design: We used a human lymphoblastoid cell line GM12891 assuming homogeneous within the cell population throughout the experiments. Biological replicates were setup for all three methods, inDrop, Drop-seq and 10X Genomics Chromium (10X), with various cell inputs in different days and batches

Data type: Transcriptome or Gene expression

Sample scope: Multiisolate

Relevance: Medical

Last updated: 2018-03-15