Fig. 7.

Topological network analysis of the polycomb complexome. a A TDA network was constructed using the Ayasdi²⁴ platform using TopS values as the input. Within the Ayasdi platform²⁴ Norm correlation was used for metric with two filter functions of Neighborhood lens 1 and Neighborhood lens 2, the resolution was set to 30 and a gain 4x eq. was used. Proteins are colored based on the rows per node. Color bar: red: high values, blue: low values. All proteins (408) that have a TopS value of 20 in at least one bait were included in here. b A histogram of the spectral counts for 9,853 candidate interactions was plotted. (c) Hierarchical biclustering on a subset of baits and preys within the dataset. Briefly, preys were included if they had a score of more than 100 in more than one bait and baits were excluded if none of the 32 proteins that passed this criteria had a score of 50 of higher in the bait. Also, RBBP4, RBBP7, CSK21, and CSK22 were removed since proteins passing the criteria above were only in RBBP4 and RBBP7 or CSK21 and CSK22. Rows and columns were clustered using Euclidean distance and Ward linkage as the method. Yellow corresponds to high TopS values and gray indicates negative scores. TDA topological data analysis, TopS topological score