Table 1. Concept analysis of the identified dysferlin protein complex partners.

A	Myoblasts	Myotubes	Tissue
1	MYOF	MYOF	MYOF
2	VCL	TRIM72	VCL
3	EIF3B	LDB3	EIF3B
4	CAPZB	VCL	DCTN1
5	DCTN1	EIF3B	LMNA
6	ANXA2	CAPZB	HSP90B1
7	UTRN	ACTN2	NEDD4L
8	EIF2S1	TTN	HSPA5
9	LMNA	ANXA2	STAT1
B	Myoblasts	Myotubes	Tissue
1	kinesin activity	Translation Initiation	kinesin activity
2	dynein activity	protein disulfide isomerase activity	dynein activity
3	Myosin ATPase	chaperonin activity	Translation Initiation
4	membrane protein traffic	heat-shock response	chaperonin activity
5	Antigen Processing	ribonucleoprotein complex location	heat-shock response
6	Translation Initiation	ubiquitin activity	ubiquitin activity
7	transfer RNA	Actin myofilament	cell-cell adhesion
8	heat-shock response	phosphatase	citric acid cycle
9	chaperonin activity		Keratins
10	ribosomal protein activity		pre-replicative complex
11	ribonucleoprotein complex location
12	Growth Cones
13	actin cap
14	actin cortical patch
15	Cytoskeleton
16	Intermediate Filaments
17	ubiquitin activity
18	nucleocytoplasmic transport
19	phosphatase
20	phosphatase
21	cyclin-dependent protein kinase activity

A) For each data set the proteins were assigned to concept profiles (summary of all concepts such as proteins, diseases and GO terms to associate with a given protein identifier), and conceptual overlap with dysferlin was calculated. The 9 proteins with strongest conceptual overlap are listed and include described interaction partners (in bold). B) Identified proteins were first clustered and subsequently annotated with concepts. Representative concepts for the uncovered clusters are shown for each data set (full table in S3).