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Input: The only input required for RepExplore is a pre-processed proteomics or metabolomics dataset of log-scale intensity measurements in tab-delimited format with labels for biological and technical replicates (example data can be downloaded or analyzed directly on the main web-interface).
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The game has a cult following as a rarely replicated example of gameplay and narrative.
10.7554/eLife.01381.032 Figure 3. Variance explained by additive and interacting variants for 57 replicated examples of epistasis in the GEUVADIS cohort.
For 24 out of 57 the replicated examples of epistasis, the interaction explains more variance than the additive effects of the SNPs.
For the 131 replicated examples of epistasis we identified all eQTL for the relevant genes amongst all sequenced cis SNPs or indels (a forward stepwise scan identified all eQTL significant with p<10−5, 'Materials and methods').
Firstly, we corrected a mistake while converting the GEUVADIS dataset genotype information; in combination with the new approach to detect more than one epistatic interaction, this resulted in substantially more replicated examples of both v-eQTL and epistasis in the GEUVADIS cohort.
Those gains have been achieved amid a political controversy that has at times seemed almost unprecedented but which in many ways replicates the example of two of the law's forerunners, Medicare and Medicaid.
Because of the reduced size of such "protein family" collections relative to complete genomic collections of tens of thousands of entities, the quality of screens can be improved by testing samples in replicates, for example.
For 3 replicates for example we took the mean values of pool combinations 123, 124, 134, 234.
We contend that, due to the dynamic nature of multi-allelic CNPs a standardized number of technical replicates (for example 2 3), is inappropriate when the difference between copy number integers is not static.
Although normalization operations manipulate the distribution of values from each sample, tests of distribution similarity between technical replicates(for example the Kolmogorov-Smirnov test used by Maksimovic et al[ 6]) are also potentially misleading because samples can be identically distributed but uncorrelated.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com