Journal: Nature Communications

Article Title: High-throughput chromatin accessibility profiling at single-cell resolution

doi: 10.1038/s41467-018-05887-x

Figure Lengend Snippet: µATAC-seq: a nano-well scATAC-seq implementation on the ICELL8 platform. a µATAC-seq workflow. b Distribution of cell counts per well measured by fluorescence microscopy (Hoechst). c µATAC-seq library complexity for null, mouse, and human targeted wells using two separate polymerases (e2Tak and Q5) for well barcoding and amplification ( n = 5000 wells). For each sample, the box denotes the interquartile range centered at the median (red line), while the whiskers span the 5th and 95th percentile range. d Correlation between nano-well chips processed with either a e2Tak (replicate 1) or Q5 polymerase (replicate 2) across all accessible loci. e Inter-well mixing of mouse and human µATAC-seq fragments. f Representative population and single-cell ATAC-seq genome tracks for the Gapdh locus. g Signal-to-background (percent reads in peaks) as a function of read depth ( n = 792). Only cells lying in the upper right quadrant (marked by dashed lines) are retained for downstream analysis

Article Snippet: Cells were counted and dispensed into nano-wells using the SMARTer TM ICELL8 ® Single-Cell System (Takara Bio USA, CA, USA, Cat. #640000) at 25 cells/µl in 0.5X PBS, 1X Second Diluent (Takara Bio USA, Cat. # 640196) and 0.4 U/µl RNase Inhibitor (New England Biolabs [NEB], MA, USA) into a SMARTer ICELL8 250v chip (Takara Bio USA, Cat. #640183).

Techniques: Fluorescence, Microscopy, Amplification