We performed differential abundance analysis in our matched control (control type I ∼ control type IIa, 78 significant hits, N = 3) and NM disease samples (ACTA1‐type I ∼ TNNT1‐type IIa, 50 significant hits, N = 3), where 35 proteins from our control differentially abundant proteins list were identified in the entire NM dataset (Fig. 2N). Here, TNNT1 is linked to nemaline myopathy.