gmcSCRB-seq uses Guanidine Hydrochloride in the lysis buffer and requires an additional clean up step. Even though this increases hands on time as well as costs, we recommend using this alternative lysis protocol in cases where cells are difficult to lyse or where the RNA appears degraded following the pre-amplification step. We have however observed reduced sensitivity with gmcSCRB-seq in some cases compared to mcSCRB-seq and would therefore only recommend using it in cases where the latter does not produce high quality libraries. gmcSCRB-seq has successfully worked on the following cells: ALL blasts (primary and PDX), AML blasts (primary and PDX), PBMCs, B cells, T cells, Macrophages, Trypanosomes and more.
HCA paper: https://www.biorxiv.org/content/10.1101/630087v1