Fig. 2
From: iFISH is a publically available resource enabling versatile DNA FISH to study genome architecture
Validation of iFISH probes. a Distributions of dot counts per nucleus for 153 out of the 330 iFISH probes shown in Fig. 1f, visualized in different colors in G1-phase HAP1 cells. AF488, Alexa Fluor 488 dye. AT542, ATTO 542 dye. AF594, Alexa Fluor 594 dye. AT647N, ATTO 647N dye. n, number of probes visualized in each channel. b Distributions of mean signal-to-noise ratios (SNR) per cell for the same probes shown in a. c Comparison between the mean SNR of each of the 153 probes analyzed in a and the DNA accessibility of the corresponding genomic target previously assessed by ATAC-seq45. R, Pearson’s correlation coefficient. d Same as in c, but comparing SNR with gene expression levels in the corresponding probe target. e Location of six consecutive iFISH probes on chr18, taken from the 330 probes shown in Fig. 1f, that were simultaneously visualized in six different colors. f Representative image of the six loci depicted in e, visualized in HAP1 cells. Blue, DNA. Scale bar, 10 μm. The maximum intensity z-projection of each channel is shown. g Frequency distribution of the number of dots per nucleus, for each of the six iFISH probes in the images of which f is a representative example. Probes are numbered according to their location shown in e
