Extended Data Fig. 3: Experimental tests and benchmarking of ISSAAC-seq. | Nature Methods

Extended Data Fig. 3: Experimental tests and benchmarking of ISSAAC-seq.

From: ISSAAC-seq enables sensitive and flexible multimodal profiling of chromatin accessibility and gene expression in single cells

Extended Data Fig. 3: Experimental tests and benchmarking of ISSAAC-seq.

a and b, Assessment of ISSAAC-seq RNA data. Distributions of total UMIs (a) and numbers of detected genes (b) from indicated conditions performed on the E14 mouse embryonic stem cells. Pro, Protector RNase inhibitor. Ribo, RiboLock RNase inhibitors. c-e, Assessment of ISSAAC-seq ATAC data. Distributions of unique nuclear fragments (c), fraction of reads in peaks (FRiP) (d) and mitochondrial content (e) from indicated conditions performed on the E14 mouse embryonic stem cells. Boxplots show median with the top and bottom edges of the box representing the 75th and 25th percentiles, respectively. The whiskers represent the most extreme values that are within 1.5 times the interquartile range of the 25th and 75th percentiles. Outliers outside the whiskers are not shown. f, UCSC genome browser tracks of aggregated scATAC-seq signal from indicated conditions. g, Species mixing experiments of ISSAAC-seq using HEK293T and NIH3T3 cells.

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