AntiSplodge: a neural-network-based RNA-profile deconvolution pipeline designed for spatial transcriptomics.

ABSTRACT: With the current surge of spatial transcriptomics (ST) studies, researchers are exploring the deep interactive cell-play directly in tissues, in situ. However, with the current technologies, measurements consist of mRNA transcript profiles of mixed origin. Recently, applications have been proposed to tackle the deconvolution process, to gain knowledge about which cell types (SC) are found within. This is usually done by incorporating metrics from single-cell (SC) RNA, from similar tissues. Yet, most existing tools are cumbersome, and we found them hard to integrate and properly utilize. Therefore, we present AntiSplodge, a simple feed-forward neural-network-based pipeline designed to effective deconvolute ST profiles by utilizing synthetic ST profiles derived from real-life SC datas

SUBMITTER: Lund JB 

PROVIDER: S-EPMC9549785 | biostudies-literature | 2022 Dec

REPOSITORIES: biostudies-literature