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Structural Patterns
Up one levelsearch for structural patterns, collaboration with Jiří Vondrášek
Uneven frequency of symmetrical patterns
This picture shows very uneven distribution of patterns, documented on symmetrical patterns. Symmetrical pattern we define as: (F5I4H3W1H5Y) -> (Y5H1W3H4I5F). Search is based on nrpdbaa database.
Pattern neighborhood (4149779)
Interaction patterns; search in astral40; threshold for including pattern in network: 10 hits (incomplete net); pattern 4149779 [T1E0E2N2K]; levels of neighborhood: 2; Description: size of each node corresponds with number of hits, color corresponds with number of neighbors. Picture from Cytoscape (Id: sp5i5_p10-4149779_n2)
Pattern neighborhood (1036817)
Interaction patterns; search in: astral40; threshold for including pattern in network: 4 hits; pattern: 1036817 [S1E0E2E0N], levels of neighborhood: 2; Description: size of each node corresponds with number of hits, color corresponds with number of neighbors. Picture from BioLayout3D (Id: sp5i5_n4_1036817_2)
Pattern neighborhood (3932695)
Interaction patterns; search in astral40; threshold for including pattern in network: 10 hits (incomplete net); pattern 3932695; levels of neighborhood: 15; maximal change in gaps: +/-1; description: size of each node corresponds with number of hits, color corresponds with number of neighbors. Picture from Cytoscape (Id: sp5i5_n4b_3932695_10_cs.png)
Paramagnetic clustering, test of the algorithm
Application of paramagnetiic clustering to the network ot protein patterns.
Complete network surrounding pattern 12194395
Interaction patterns; search in: astral70; threshold for including pattern in network: 4 hits; pattern: 12194395 [N1T1E3E2K], levels of neighborhood: 100; Description: size of each node corresponds with number of neighbors, color corresponds with number of observed hits. Picture from Cytoscape (Id: sp5i6_n4b_12194395_100)
Complete network surrounding pattern 27464727
Interaction patterns; search in: astral70; threshold for including pattern in network: 4 hits; pattern: 27464727 [E2E0K2Q6S], levels of neighborhood: 100; Description: size of each node corresponds with number of neighbors, color corresponds with number of observed hits. Picture from Cytoscape (Id: sp5i6_n4b_27464727)
Paramagnetic clustering of patterns, v1 (12190279)
Interaction patterns; search in: astral70; threshold for including pattern in network: 4 hits; pattern: 12190279 [N1T1E0E6E], levels of neighborhood: 100; description: size of each node corresponds with number of observed hits, color shows clusters generated in 3rd iteration by paramagnetic_clusterinv_v1.pl; picture from cytoscape, layot organic. [Id: sp5i6_n4b_12194395_100]
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