This analysis yielded 4 clusters in the brain (Table 3 B ). Two prominent clusters were located in the precentral gyrus, where effects of reversibility were also seen.
The complete clustering tree as well as a table of the most prominent clusters is given in the Additional file 1.
Among genes in the initially responsive category, the most prominent clusters were involved in ion and trans-membrane transport, specifically calcium and sodium ion transport.
A prominent cluster was identified, consisting of genes encoding the extrinsic PSII proteins together with genes encoding the major form of plastocyanin (PLAT) and an 18.3 kDa lumen protein recently implicated in the regulation of the PSII repair cycle [5].
A final small but prominent cluster was the hemoglobins – alpha, beta, and zeta.
Another prominent cluster is composed of acetyl-CoA, CoA, FAD, AMP as well as GSH and GSSH.
One prominent cluster is dorsomedial (DM) dopamine neurons and was found significantly reduced in aged A30P flies [CTDM vs. A30PDM: t(38) = 5.325, P < 0.001; Fig. 1d].
A further prominent cluster was 'Autism spectrum disorder, Thrombocytosis, Decreased mean platelet volume' (Additional file 10, cluster 29 and Figure 5) illustrating an increasingly recognised association between platelet abnormalities and neurological disorders [ 34].
The concept of similarity is prominent here, as clusters are typically identified by focusing on common properties (e.g., age, employment, health records).
The most prominent gene expression clusters are highlighted in Additional file 2: Figure S1 A-D and Additional file 3: Table S2.
