Suggestions(1)
Exact(9)
The current version covers 91,879 pathways generated from 240 reference pathways and around 850 taxonomic species with 10,303 reactant pairs and 15,217 metabolites.
Comparison of the pathways generated from SCNA-genes in our data and genes affected by copy number changes in two published datasets (Stark and Hayward [14] and Gast et al. [13]) revealed a high level of overlap, much higher than we expected based on the number of commonly affected genes (see Fig. 4).
At present, the KEGG contains 134,511 distinct pathways generated from 391 original reference pathways [ 37].
Currently, KEGG contains 198,560 pathways generated from 428 reference pathways.
At present, KEGG contains 134,511 distinct pathways generated from 391 original reference pathways [ 26].
By comparison, pathways generated from 5 differential nodes by traditional ORA are far from significant (p-value ≈ 1).
Similar(51)
We cannot exclude that the circadian effects on the photoperiod pathway generated from BR and ABA signaling are not canceling out, as these hormones have opposite effects on the "speed" of clock periodicity [34].
A comparison of the top hit KEGG pathway generated from both methods was presented in Additional file 9, where a similar hit pattern of the over-representative genes in both methods were found.
In KEGG, 74,729 pathways are generated from 361 reference pathways.
Enrichment of a host functional pathway for association with bacterial taxa was assessed by comparing the observed rank product of all host gene-bacterial taxon association tests for all genes in the pathway with the distribution of rank products of 100,000 size-matched pathways randomly generated from the null Immunochip variants described above.
A collection of pathways were generated from the second simulation.
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