. Author manuscript; available in PMC: 2013 May 4.

Published in final edited form as: J Proteome Res. 2012 Apr 4;11(5):2721–2738. doi: 10.1021/pr2010814

Table 1.

Proteins determined enriched in FTLD detergent insoluble proteome using SILAC internal standards

Reference	Gene Symbol	Description	Replicate 1 (R1)						Replicate 2 (R2)						R1			R2
			Control			FTLD			Control			FTLD			Difference			Difference				Total SC (R1 + R2)

			log₂ (L/H)	S.E.	N	log₂ (L/H)	S.E.	N	log₂ (L/H)	S.E.	N	log₂ (L/H)	S.E.	N	Raw	S.E.S^†	Norm	Raw	S.E.S^†	Norm	Avg. Diff (R1+R2)	FTLD	Control	p value	Significant by SC
Cytosol/Metabolic
NP 004300.1	ARHGDIA	Rho GDP dissociation inhibitor (GDI) alpha (RHOGDI-alpha)	−0.81	0.06	2	1.2	0.13	3	−0.71	0.16	2	1.25	0.06	3	2.01	0.14	1.69	1.96	0.17	1.56	1.63	10	4	2.22E-01	No
NP 478059.1	PSAT1	phosphoserine aminotransferase isoform 1	ND	ND	ND	2.38	0.30	3	0.19	0.06	6	2.95	0.14	7	2.38	ND	2.06	2.76	0.16	2.36	2.21	16	3	7.14E-03	Yes
NP 000166.2	GPI	glucose phosphate isomerase	0.51	0.19	8	3.56	0.36	17	0.57	0.06	7	3.14	0.19	16	3.05	0.41	2.73	2.57	0.19	2.17	2.45	165	24	< 2.2E-16^*	Yes
NP 060705.1	CNDP2	CNDP dipeptidase 2	ND	ND	ND	3.26	0.32	5	1.3	0.18	2	3.69	0.29	10	3.26	ND	2.94	2.39	0.34	1.99	2.47	38	4	1.99E-07	Yes
NP 001055.1	TKT	transketolase	−1.73	0.19	8	0.42	0.04	8	−1.91	0.09	10	0.33	0.05	17	2.15	0.20	1.83	2.24	0.10	1.84	1.84	40	3	1.04E-08	Yes
NP 695012.1	UBA1	ubiquitin-activating enzyme E1	−0.29	0.14	17	1.65	0.17	17	0.01	0.17	17	2.01	0.19	15	1.94	0.22	1.62	2.00	0.26	1.60	1.61	138	68	1.49E-04	Yes
NP 000356.1	TPI1	triosephosphate isomerase 1	−1.39	0.08	4	0.58	0.14	9	−1.43	0.15	8	0.56	0.09	10	1.97	0.16	1.65	1.99	0.18	1.59	1.62	39	14	3.45E-03	Yes
NP 001900.1	CTSD	cathepsin D preproprotein	−0.31	0.23	2	1.67	0.88	2	0.24	0.00	1	1.66	0.24	4	1.98	0.91	1.66	1.42	0.24	1.02	1.34	8	1	4.37E-02	No
NP_002564.1	PAFAH1B3	platelet-activating factor acetylhydrolase, isoform Ib, gamma subunit 29kDa	1.07	0.00	1	3.1	0.00	1	0.77	0.03	3	2.67	0.05	4	2.03	0.00	1.71	1.90	0.05	1.50	1.61	9	7	9.28E-01	No

Cytoskeleton/Filaments
NP 005498.1	CFL1	cofilin 1	−0.17	0.06	4	1.85	0.04	3	−0.07	0.08	4	1.46	0.17	5	2.02	0.07	1.7	1.53	0.19	1.13	1.42	39	15	6.30E-03	Yes
NP_075408.1	DCTN1	dynactin 1	1.43	0.57	3	2.57	0.85	2	1.94	0.05	4	3.88	0.29	9	1.14	1.02	0.82	1.94	0.30	1.54	1.18	15	10	6.04E-01	No

Endoplasmic Reticulum/Chaperone
NP 004095.4	FASN	fatty acid synthase	−1.08	0.22	28	0.92	0.39	12	−1	0.24	35	0.60	0.25	29	2	0.45	1.68	1.60	0.35	1.20	1.44	60	50	9.85E-01	No
NP 000933.1	PPIB	peptidylprolyl isomerase B	−3.19	0.25	4	−1.06	0.27	3	−3.34	0.20	9	−1.11	0.04	5	2.13	0.36	1.81	2.23	0.20	1.83	1.82	3	0	2.07E-01	No
NP 004334.1	CALR	calreticulin	−2.33	0.26	4	−0.58	0.08	5	−2.55	0.09	8	−0.41	0.04	8	1.75	0.27	1.43	2.14	0.10	1.74	1.59	9	1	2.53E-02	No
NP_005304.3	PDIA3	protein disulfide isomerase-associated 3	−1.15	0.13	6	0.42	0.11	8	−1.51	0.05	11	0.39	0.06	14	1.57	0.18	1.25	1.90	0.08	1.50	1.38	29	2	1.13E-06	Yes

Mitochondria/Metabolic
NP 005521.1	IDH3A	isocitrate dehydrogenase 3 (NAD+) alpha	1.44	0.08	4	3.48	0.17	11	1.28	0.07	9	2.72	0.21	11	2.04	0.19	1.72	1.44	0.22	1.04	1.38	80	27	6.98E-06	Yes
NP_777280.1	IDH3B	isocitrate dehydrogenase 3, beta subunit isoform b	1.14	0.00	1	3.35	0.18	8	1.25	0.06	7	3.32	0.15	11	2.21	0.18	1.89	2.07	0.17	1.67	1.78	39	10	1.70E-04	Yes

Nuclear/Splicing/Transcription
NP 620407.1	MAPK1	mitogen-activated protein kinase 1	ND	ND	ND	2.64	0.14	3	0.39	0.30	4	2.50	0.20	8	2.64	ND	2.32	2.11	0.36	1.71	2.02	11	3	7.42E-02	No
NP_005057.1	SFPQ	polypyrimidine tract binding (PTB) protein associated splicing factor (PSF)	−1.97	0.17	8	−0.89	0.36	4	−2.36	0.23	7	−0.47	0.53	6	1.08	0.40	0.76	1.89	0.58	1.49	1.13	5	4	1.00E+00	No

Membrane/Transport
NP 000691.1	ANXA1	annexin I	−1.54	0.17	5	1.39	0.26	6	−1.84	0.06	9	1.22	0.02	8	2.93	0.31	2.61	3.06	0.06	2.66	2.64	26	6	1.35E-03	Yes
NP 000692.2	ATP1A1	Na+/K+-ATPase alpha 1 subunit isoform a	0.61	0.56	5	2.41	0.04	2	−0.24	0.49	12	1.64	0.30	8	1.8	0.57	1.48	1.88	0.58	1.48	1.48	13	16	2.74E-01	No

p values are below the smallest floating point number in the statistical package R (2.2E-16).

^†

Standard error of sums