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. Author manuscript; available in PMC: 2020 Jun 27.
Published in final edited form as: Cell. 2019 Jun 20;178(1):229–241.e16. doi: 10.1016/j.cell.2019.05.019

Figure 4. Accurate reconstruction by DNA microscopy of fluorescence microscopy data.

Figure 4.

(A,B) Optical imaging of co-cultured cells. (A) Full reaction chamber view of co-cultured GFP- and RFP-expressing cells (scale bar = 500 um). (B) Zoomed view of the same cell population (scale bar = 100 um). (C,D) DNA microscopy of co-cultured cells. (C) Rarefaction of UMIs and UEIs with increasing read-sampling depth. (D) sMLE inference applied to DNA microscopy data, reflected/rotated and rescaled for visual comparison with photograph. Transcripts, sequenced to 98 bp, are colored by sequence identity: grey = ACTB (beacons), white = GAPDH, green = GFP, red = RFP. Grid-line spacings: diffusion length scales (Ldiff), emerging directly from the optimization (STAR Methods).