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The cropping was executed in Geomagic (version 2012, Morrisville, NC, USA) with the "Plane Intersection" module.
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We then identified the intersection between the disease modules.
Thus, gene expression correlation structure is similar between men and women, and here we focus on properties of the intersection of the overlapping modules.
It is not cogenerated by the remaining modules, thus the intersection of the kernels of all maps ϕ : M i → M j with j ≠ i is non-zero.
Modules with an intersection of less than 3 were discarded from the analysis.
Defining the intersection of pairs from predicted modules and pairs from known complexes as correctly predicted pairs, we calculated precision and recall as follows.
In contrast to the regular F-measure (Additional file 1 Figure S1 C), the F'-measure penalizes overpredicted edges in order to avoid unnecessary overlap between the expression modules: an edge (A, B) that is inferred multiple times from the clustering, because the genes A and B belongs to the intersection of multiple (say x) modules, is counted as 1 tp and x - 1 fp.
The graded radical of a graded submodule N of a graded module M is the intersection of all graded prime submodules of M containing N and is denoted by gra d M (N).
We identified highly connected functional modules operating within the intersection S. meliloti network by using the Markov Cluster (MCL) algorithm [ 35].
The entire process of road intersection detection is divided into two sequential modules.
We then determined the intersection between these 100 sets of disease modules and compared this to the real intersection.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com