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Figure 6 | BMC Bioinformatics

Figure 6

From: Identification and correction of previously unreported spatial phenomena using raw Illumina BeadArray data

Figure 6

Signal overspill from a bright bead onto its neighbours. (A) A false-colour image of section 4343238080_B_2 showing the region surrounding a bright bead centred at pixel (377, 734). The highest intensity pixels are indicated in dark blue, whilst the dimmest pixels are white. Bead-centre locations are marked with a cross. Each of the black squares show the 16 pixels used to calculate the foreground intensity for the neighbours, with the size of the circles in each square representing the weight attributed to each pixel during the foreground calculation. Neighbours 1, 3 and 5 appear to fall largely within the signal emitted by the bright bead. Bead 7 is included as an example where the bead-centre was identified between pixels, resulting in a more even weights matrix. (B) A bar chart showing the difference between the calculated log intensity for each of the neighbouring beads and the median log intensity for beads of that type. Those beads that fell within the signal emitted by the bright bead are all seen to have a dramatically higher intensity score than is expected for their respective bead-types.

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