Supplementary Materials

Multiplex single-cell profiling of chromatin accessibility by combinatorial cellular indexing

Darren A. Cusanovich, Riza Daza, Andrew Adey, Hannah Pliner, Lena Christiansen, Kevin L. Gunderson, Frank J. Steemers, Cole Trapnell, Jay Shendure

Materials/Methods, Supplementary Text, Tables, Figures, and/or References

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  • Materials and Methods
  • Figs. S1 to S22
  • Table S1
  • References
Table S2
Tests of differential accessibility from single cell ATAC-seq data comparing GM12878 and HL-60. This table contains all 52,479 sites tested for differentially accessibility. It is too large to include here and so is supplied as a separate file. For this analysis, sites overlapping copy number variants identified by the ENCODE Consortium for either cell type were filtered out. In addition, chromosomes 18, X and Y were removed, because HL-60 is known to be trisomic for all three. The columns of the file are as follows:
Column 1 – Chromosome of element
Column 2 – Genomic start coordinate of element
Column 3 – Genomic end coordinate of element
Column 4 – P-value from our binomial test of differential accessibility between the two cell types
Column 5 – Significance indicator. "0" = not significant after multiple test-correction. "1" = significant after multiple test-correction.