Fig. 3: Identification of molecular systems in SFG and ITG based on protein abundance.

a, Schematic representation of how proteins were clustered into co-abundant modules. Modules were inferred solely from proteomics data by applying a consensus clustering algorithm (SpeakEasy2 (ref. ²⁶)) on the corresponding protein–protein correlation matrix, with no reference to ontology. b, SFG proteins arranged by their assigned module. Protein pairs within the same module (bounded by dashed squares) display a higher correlation than protein pairs belonging to separate modules. A short functional label was assigned to each module (‘transcription’, ‘chromatin’, etc.) based on its more highly enriched GO terms. The P value of the most enriched GO term of each module is indicated by the corresponding mauve bar (if −log₁₀(P) > 40, bars are truncated with −log₁₀(P) values stated). Modules were separately generated for SFG and ITG, with the module of interest in terms of brain connectivity highlighted in dashed red lines and red text. c, ITG counterpart of b. d, Most modules in one region have one or more highly overlapping modules in the other region (number of overlapping proteins shown in white text when −log₁₀(P) > 14), enriched for similar GO terms. ECM, extracellular matrix.