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This is a very high overlap, with a significance p-value of less than 10-99 when compared to a chance overlap with an equal number of random protein pairs.
Co-localisation was quantified using a mask generated from the streptavidin channel as explained in Figure 2 figure supplement 3. Importantly, as the different markers label abundant structures it was possible that low levels of co-localisation would be detected due to chance overlap rather than specific labelling of the same structures.
Given the number of MSP window-triggering marker instances in the original GWLS (SCZ = 133, BP = 56, full results not shown) included in our analyses and the full genomic coverage employed by GSMA, a substantial amount of chance overlap between methods may have been expected.
Kappa coefficients represent agreement corrected for chance overlap due to category prevalence.
Our study presents a novel method using ALE analyses to derive a statistical test for the chance overlap of the spatial distribution of the two disorders.
Nevertheless, we addressed this quantitatively by estimating the chance overlap of trajectories by repeating the colocalization analysis after spatial shuffling (i.e. inverting the image axes: x→ y and y→ x for one channel), thus enabling correction of all colocalization measurements for chance coincidence (Table S1).
Similar(54)
By chance, overlaps occur between a pavilion and the main show, implying actual coordination.
We found 927 SNPs associated with both AD and T2D with p-value ≤0.01, an overlap significantly larger than random chance (overlapping p-value of 6.93E−28).
Studies show that the best-ranked residues form fewer and larger structural clusters than expected by chance and overlap with functional sites, but until now the significance of this overlap has remained qualitative.
Finally, both lists may contain come false positives, which could reduce the chance of overlap.
We computed a p-value for observing (by chance
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