Batch Effect

Update: This paper has now been published at Nature Biotech “Panoramic stitching of heterogeneous single-cell transcriptomic data” by Brian L Hie, Bryan Bryson, Bonnie Berger. https://doi.org/10.1101/371179 I selected this article for review for three reasons: I work with single-cell RNA-Sequencing (scRNA-seq) data quite a bit. Methods that can integrate two or more scRNA-seq data sets (across experiments, conditions, treatments, etc) are in high demand and are actively being worked on by many groups. »

“Detecting and harmonizing scanner differences in the ABCD study - annual release 1.0” Dylan M Nielson, Francisco Pereira, Charles Y Zheng, Nino Migineishvili, John A Lee, Adam G Thomas, Peter A Bandettini bioRxiv 309260; doi: https://doi.org/10.1101/309260 I have selected the manuscript this article to be featured in biOverlay because it discusses an increasingly important topic of statistical issues involved in combining data from multiple sources. The authors used a large dataset produced by the ABCD consortium that spans multiple sites and scanners. »