The ~300,000 proteins from all 18 species are merged into 1398 Root SF clusters (excluding singletons, see Methods, Fig. 1a).
(a) Number of clusters excluding singletons.
Corresponding clusters excluding challenges in the training sets are available in Additional file 1: Figures S5 and S6.
This in-house practice favors the threshold associated with the highest number of observed clusters, excluding singletons.
Therefore, it is possible to classify DLX sequences in species with 3 bi-gene clusters (excluding Teleostei) by looking at four amino acid sites only (positions 18, 23, 56 and 60).
The protein provides a protective, hydrophobic environment around the Fe S clusters, excluding solvent and improving stability.
Size A and Size B indicate numbers of genes in respective clusters, excluding annotated pseudogenes and gene fragments.
The average number of HGNC genes regulated by the first five clusters (excluding singletons) was 2,206, ranging from 592 for cluster R05 to 4,724 for cluster R06.
Interestingly, one-third of the general clusters (excluding the singletons R04, R05, R07, R09, R10, R17, and R24) could not be associated with any HeLa cluster.
The centroid/average of each cluster pair is calculated, and then, with the leftover clusters excluded, the entire new set of the paired clusters is subjected to the same pairing operation under the constraint of the same threshold in the next iteration.
Since all A. scopulorum populations started to form a distinct cluster, excluding populations of other species, from K = 5, we considered the results from this K-value.
