Table 1. Top 50 extracellular vesicle protein accessions purified by differential centrifugation and size exclusion chromatography.

BLAST descriptions were chosen upon the lowest E-value hit and top accessions were identified by the highest unique peptide hits. Data analysed using BLAST2GO. Highlighted cells in grey shading signify proteins identified in the top 50 proteins of DC or SEC purified EVs, but were not present in the full EV proteome of the opposite purification methodology. Full protein identifications can be found in S3 File.

Size Exclusion Chromatography					Differential Centrifugation
Rank	Sequence ID	Description	Unique Peptide Hits	Total Peptide Hits	Rank	Sequence ID	Description	Unique Peptide Hits	Total Peptide Hits
1	BN1106_s3182B000117	myosin heavy chain	115	437	1	BN1106_s3182B000117	myosin heavy chain	135	605
2	BN1106_s309B000234	heat shock protein 70	109	1659	2	BN1106_s309B000234	heat shock protein 70	120	1906
3	BN1106_s1300B000145	SJCHGC06288 protein	100	1994	3	BN1106_s1300B000145	SJCHGC06288 protein	107	2046
4	BN1106_s175B000200	hexokinase	97	1440	4	BN1106_s1320B000236	heat shock protein 90	104	843
5	BN1106_s819B000364	annexin A7	96	1480	5	BN1106_s819B000364	annexin A7	99	1812
6	BN1106_s3585B000136	myoferlin	95	669	6	BN1106_s4069B000247	alpha-actinin	98	880
7	BN1106_s617B000566	leucine amino peptidase	94	1528	7	BN1106_s617B000566	leucine amino peptidase	97	1460
8	BN1106_s4069B000247	alpha-actinin	87	633	8	BN1106_s1403B000129	hypothetical protein	94	1627
9	BN1106_s2907B000133	hypothetical protein	86	1441	9	BN1106_s1871B000313	programmed cell death 6-interacting protein	93	902
10	BN1106_s1403B000129	hypothetical protein	82	964	10	BN1106_s2907B000133	hypothetical protein	92	1777
11	BN1106_s274B000296	Adenosine Triphosphate binding cassette subfamily	82	749	11	BN1106_s175B000200	hexokinase	92	1344
12	BN1106_s945B000218	Annexin	81	663	12	BN1106_s3585B000136	myoferlin	90	736
13	BN1106_s3227B000227	phosphopyruvate hydratase	78	567	13	BN1106_s90B000599	Adenosine Triphosphase family protein	89	200
14	BN1106_s2471B000098	PREDICTED: phosphatidylcholine translocator ABCB4	77	635	14	BN1106_s2471B000098	PREDICTED: phosphatidylcholine translocator ABCB4	86	572
15	BN1106_s1320B000236	heat shock protein 90	77	521	15	BN1106_s3904B000042	14-3-3 protein	83	1029
16	BN1106_s1871B000313	programmed cell death 6-interacting protein	76	851	16	BN1106_s606B000246	alpha-tubulin	83	787
17	BN1106_s233B000262	hypothetical protein	74	527	17	BN1106_s3227B000227	phosphopyruvate hydratase	82	598
18	BN1106_s246B000252	phosphoenolpyruvate carboxykinase	69	602	18	BN1106_s246B000252	phosphoenolpyruvate carboxykinase	81	909
19	BN1106_s204B000249	calpain	69	546	19	BN1106_s945B000218	Annexin	80	712
20	BN1106_s2349B000188	severin	69	462	20	BN1106_s7079B000034	hypothetical protein	80	615
21	BN1106_s3261B000048	otoferlin	65	360	21	BN1106_s2697B000090	leucine Rich repeat-containing domain protein	80	500
22	BN1106_s1081B000242	chain A, Sigma class glutathione S-transferase	64	472	22	BN1106_s274B000296	Adenosine Triphosphate binding cassette subfamily	78	669
23	BN1106_s500B000161	annexin	63	413	23	BN1106_s233B000262	hypothetical protein	76	484
24	BN1106_s3904B000042	14-3-3 protein	62	846	24	BN1106_s2907B000132	actin	75	805
25	BN1106_s2615B000090	dysferlin	61	449	25	BN1106_s1153B000359	tubulin beta-4	71	619
26	BN1106_s468B000343	xaa-pro dipeptidase	60	851	26	BN1106_s2349B000188	severin	70	1062
27	BN1106_s3747B000112	hypothetical protein	60	529	27	BN1106_s4469B000065	fructose-bisphosphate aldolase class I	68	622
28	BN1106_s4252B000085	uncharacterized protein	60	475	28	BN1106_s5174B000030	glyceraldehyde-3-phosphate dehydrogenase	68	408
29	BN1106_s658B000223	hypothetical protein	58	825	29	BN1106_s3261B000048	otoferlin	68	386
30	BN1106_s7079B000034	hypothetical protein	58	531	30	BN1106_s658B000223	hypothetical protein	67	929
31	BN1106_s686B000273	14-3-3 protein	54	480	31	BN1106_s500B000161	Annexin	67	544
32	BN1106_s3266B000046	annexin	54	381	32	BN1106_s4860B000047	Tubulin beta chain	66	748
33	BN1106_s2091B000373	DnaK family protein	54	278	33	BN1106_s2615B000090	Dysferlin	66	534
34	BN1106_s1515B000336	filamin-C	52	139	34	BN1106_s1277B000102	Heat shock protein 90	65	148
35	BN1106_s5174B000030	glyceraldehyde-3-phosphate dehydrogenase	51	243	35	BN1106_s468B000343	Xaa-Pro dipeptidase	64	766
36	BN1106_s2907B000132	actin	50	441	36	BN1106_s204B000249	calpain	64	431
37	BN1106_s3172B000053	14-3-3 protein	49	513	37	BN1106_s4413B000122	hypothetical protein	64	421
38	BN1106_s4469B000065	fructose-bisphosphate aldolase class I	49	431	38	BN1106_s63B000395	hypothetical protein	63	184
39	BN1106_s617B000567	leucyl aminopeptidase	48	507	39	BN1106_s3172B000053	14-3-3 protein	62	545
40	BN1106_s2100B000128	hypothetical protein	48	301	40	BN1106_s4252B000085	uncharacterized protein	61	524
41	BN1106_s1191B000313	hypothetical protein	48	183	41	BN1106_s3747B000112	hypothetical protein	60	584
42	BN1106_s3001B000132.	hypothetical protein	47	255	42	BN1106_s1081B000242	chain A, Sigma class glutathione S-transferase	59	369
43	BN1106_s6821B000024	hypothetical protein	45	351	43	BN1106_s617B000567	leucyl aminopeptidase	58	457
44	BN1106_s55B000373	hypothetical protein	44	97	44	BN1106_s686B000273	14-3-3 protein	57	468
45	BN1106_s584B000346	glucose transporter-2 protein	43	260	45	BN1106_s2091B000373	DnaK family protein	57	283
46	BN1106_s4860B000047	tubulin beta chain	42	235	46	BN1106_s3033B000087	phosphoglycerate kinase	57	231
47	BN1106_s584B000350	glucose transporter-2 protein	41	320	47	BN1106_s285B000846	unnamed protein product	56	442
48	BN1106_s4560B000072	tetraspanin family protein	41	223	48	BN1106_s6821B000024	hypothetical protein	55	437
49	BN1106_s1614B000280	alkyl hydroperoxide reductase/ Thiol specific antioxidant family	41	204	49	BN1106_s2349B000191	gelsolin repeat protein	54	286
50	BN1106_s487B000135	hypothetical protein	41	180	50	BN1106_s487B000135	hypothetical protein	52	177