Fig. 2: Benchmarking DART-FISH on the human M1C.
From: Mapping human tissues with highly multiplexed RNA in situ hybridization
a Parallel sections were taken from a dissected post-mortem human M1C tissue block. Spatial distribution of 121 genes was measured by DART-FISH with 6 rounds of decoding. b Scatter plot showing reproducibility between parallel tissue sections processed independently. Each dot represents the total count of each gene detected in each replicate. c The histogram for the number of high quality decoded rolonies per cell. d Spatial distribution of excitatory neuron markers (SLC17A7 and SATB) and inhibitory neuron markers (GAD1 and GAD2) in the whole tissue. The dashed rectangular box delineates the ROI in f. e Zoomed-in views to show the segregation of excitatory and inhibitory markers at single-cell level in 4 ROIs indicated by the black squares in c. Scale bars 20 μm. f Validation of DART-FISH by RNAscope. Spatial distribution of SLC17A7, CUX2, CBLN2, RORB and FEZF2 across the cortical layers measured by RNAscope (left) and DART-FISH (right). Scale bar 100μm. g Quantitative comparison of counts for SLC17A7, PVALB, CBLN2, RORB, CUX2, AQP4, APBB1IP, FEZF2, GAD2, and LAMP5 in DART-FISH and RNAscope in equivalent ROIs. Percentages represent total spots detected in DART-FISH divided by total spots detected in RNAscope multiplied by 100. h Comparing DART-FISH and MERFISH59 (sample H18.06.006.MTG.4000.expand.rep2). Each dot represents the mean count per cell for the 56 shared genes. i Comparing DART-FISH and EEL FISH60 (data from human visual cortex). Each dot represents the total count for one of the 60 shared genes. Source data are provided as a Source Data file.
