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Only the top 10 statistically enriched process networks are shown according to the sorted P values in MetaCore.
Then we separate the set of labels into relevant and irrelevant label subsets according to the largest change observed across the sorted P (c k | x i).
Sort Pi from the smallest to the largest, and let P i) be the ith sorted P value and i its rank.
Upon the third serial replating, unsorted (P = 0.063) and CD44+/CD24-/ESA+ CD44+/CD24-/ESA+1) cellsortedinue to enrich for CFUs, whereas the CD44+/CD24+/ESA+ and CD44+/CD24-/ESA- sorted cells exhibit evidence of exhaustion at the third Passage (Figire 4a, yellow bars versus red bars).
Then, the FDR for each sorted P value was calculated by timing the P value with m/i, and monotonizing all of the FDRs from the largest to the smallest: Cluster correlation analysis was performed with an R script written in-house, in accordance with the method proposed by Weinstein and coworkers [ 33].
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Figure 5 plots these sorted p-values against average (log) sorted p-values for the random combinations.
More explicitly, let p1<p2<.<pS to be the <span class="lh">sorted p-values associated to the S nulls.
We next sorted p-WT Xn according to NCAM expression and ALDH1 activity to generate NCAM+ALDH1+ versus NCAM+ALDH1− cell fractions.
For the given QTL category, the sorted p-values for sub-sets are P (G 1 ∩ Q ) ≤ P (G 2 ∩ Q ) ≤ ⋯ ≤ P (G i ∩ Q ) ≤ ⋯ ≤ P (G m ∩ Q ), where Q represent genes within all QTL regions for a specific trait.
We therefore performed a panorama antibody array (725 validated antibodies that detect proteins associated with a variety of key cell signaling and gene regulation pathways) on extracts of p-WT Xns early after initiation by sorted NCAM+ cells, un-sorted p-WT Xn and normal kidneys (Supporting Information Table S4).
Based on the simulations it is likely that the apparently paradoxical slow transformation of sorted "low P" compared to sorted "high P" cells is a logical consequence of the local density-sensing capacity and the fact that the experiment always starts with low initial cell density.
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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