TY - JOUR AU - Guo, Hongyu AU - Li, Jun PY - 2021 DA - 2021/02/22 TI - scSorter: assigning cells to known cell types according to marker genes JO - Genome Biology SP - 69 VL - 22 IS - 1 AB - On single-cell RNA-sequencing data, we consider the problem of assigning cells to known cell types, assuming that the identities of cell-type-specific marker genes are given but their exact expression levels are unavailable, that is, without using a reference dataset. Based on an observation that the expected over-expression of marker genes is often absent in a nonnegligible proportion of cells, we develop a method called scSorter. scSorter allows marker genes to express at a low level and borrows information from the expression of non-marker genes. On both simulated and real data, scSorter shows much higher power compared to existing methods. SN - 1474-760X UR - https://doi.org/10.1186/s13059-021-02281-7 DO - 10.1186/s13059-021-02281-7 ID - Guo2021 ER -