Son KD in mouse embryonic stem cells

Gene-expression noise can influence cell-fate choices across pathology and physiology. However, a crucial question persists: do regulatory proteins or pathways exist that control noise independently of mean expression levels? Resulting from a previous screen, the protein SON was identified as a potential noise regulator. We perform Son KD and utilize single-cell RNA sequencing (scRNA-seq) to quantify the changes in mean/noise of all transcripts. This dataset corresponds to the aforementioned scRNA-seq experiment upon Son KD. Mouse embryonic stem cells (mESCs) were seeded and growth in serum/LIF conditions. 24 hours post-seeding, knock down of Son was induced with siRNA transfection (Lipofectamine 2000). After treatment cells were dechached and frozen in preparation for single-cell RNA sequencing. A portion of the cells were utilized to validate the knock down at the protein level. Cells were brought in dry ice to sequencing facility and single-cell RNA sequencing was performed from a freshly thawed sample after fast sorting of viable cells, through single-cel barcoding (10x Genomics'Chromium) and sequencing (NextSeq 2000, Single Cell 3'v3 chemistry).