Table 1.

Distinctive protein profile along the ileal villus-crypt axis is disrupted in CD98 overexpressing mice.

Spot No.a	Accession IDb	Protein Name	Gene	Scorec	No. of Unique Peptidesd	MW [kDa]	Protein pIe	Relative expression Log2 (Spot Volume Ratio)
								WT Villus-Crypt Axis	Tg Villus-Crypt Axis	Between Villus (Tg: WT)	Between Crypt (Tg: WT)
719	Q3UWP8	Calreticulin (calregulin)	Calr	10.40	2	42.20	4.74	−3.66	−0.93	1.69	−1.03
719	B2RTP7	Krt2 protein	Krt2	10.97	2	70.90	8.06	−3.66	−0.93	1.69	−1.03
619	Q3UDR2	Prolyl 4-hydroxylase, beta polypeptide	P4hb	122.95	10	56.60	4.89	−3.22	−4.02	−1.80	−1.00
550	P30416	Peptidyl-prolyl cis-trans isomerase FKBP4	Fkbp4	41.62	5	51.50	5.72	−2.83	−1.75	0.99	−0.09
150	P58252	Elongation factor 2	Eef2	294.38	26	95.30	6.83	−2.60	−4.55	−1.74	0.20
726	P56480	ATP synthase subunit beta, mitochondrial	Atp5b	96.05	7	56.30	5.34	−2.59	−1.04	0.79	−0.77
726	Q922R8	Protein disulfide-isomerase A6	Pdia6	53.55	6	48.10	5.14	−2.59	−1.04	0.79	−0.77
263	Q8CBU4	Ezrin (cytovillin)	Ezr	15.91	2	50.20	5.80	−2.47	−1.03	0.59	−0.85
263	Q9Z1R9	MCG124046 (Protease, Serine, 1)	Prss1	26.44	1	26.10	4.94	−2.47	−1.03	0.59	−0.85
143	Q6IWE2	Beta-actin (Fragment)	Actb	14.51	1	8.60	4.49	−1.99	−3.75	−1.65	0.11
424	Q9CWJ9	Bifunctional purine biosynthesis protein PURH	Atic	104.14	10	64.20	6.76	−1.82	−2.71	−0.55	0.35
144	O08601	Microsomal triglyceride transfer protein large subunit	Mttp	45.99	8	99.00	7.62	−1.46	−3.26	−1.52	0.28
526	P52480	Pyruvate kinase PKM	Pkm	65.83	7	57.80	7.47	−1.36	−4.04	−2.15	0.53
313	P20029	Heat shock protein 5	Hspa5	104.65	9	72.40	5.16	−1.19	0.33	2.06	0.54
399	Q8BMF4	Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial	Dlat	120.64	9	67.90	8.57	−1.13	−2.55	−1.16	0.26
399	E9Q800	Mitochondrial inner membrane protein	Immt	13.63	3	75.60	7.80	−1.13	−2.55	−1.16	0.26
436	P80317	T-complex protein 1 subunit zeta	Cct6a	44.40	4	58.00	7.08	−1.05	−2.27	−0.92	0.30
436	Q99KE1	Malic enzyme 2, mitochondrial NAD-dependent	Me2	39.24	6	65.80	7.61	−1.05	−2.27	−0.92	0.30
527	A0A0N4SV00	T-complex protein 1 subunit eta	Cct7	138.27	11	55.00	7.83	−1.04	−3.18	−1.98	0.17
581	Q9D1A2	Cytosolic non-specific dipeptidase	Cndp2	85.77	10	52.70	5.66	−0.68	−2.96	−2.32	−0.04
556	Q9Z110-2	Isoform Short of Delta-1-pyrroline-5-carboxylate synthase	Aldh18a1	28.93	4	87.00	7.55	−0.66	−2.61	−2.59	−0.64
556	Q8C165	Probable carboxypeptidase PM20D1	Pm20d1	63.73	7	55.60	6.43	−0.66	−2.61	−2.59	−0.64
88	B2RXT5	Glucose-6-phosphate isomerase	Gpi1	1.56	1	38.30	8.48	−0.40	−3.53	−3.32	−0.18
178	Q8C872	Transferrin receptor protein 1	Tfrc	5.22	1	57.30	6.48	−0.30	−2.18	0.07	1.95
1031	Q93092	Transaldolase 1	Taldo1	34.64	4	37.40	7.03	0.25	−1.19	−2.05	−0.61
1025	P47753	F-actin-capping protein subunit alpha-1	Capza1	39.84	4	32.90	5.55	0.27	0.22	−2.15	−2.10
176	P07724	Serum albumin	Alb	17.61	2	68.60	6.07	0.89	−2.45	−1.67	1.67
1336	A1L0X5	Krt78 protein (Fragment)	Krt78	17.62	1	54.70	6.30	0.96	−2.24	0.21	3.41
1336	B2CY77	Laminin receptor (Fragment)	Rpsa	45.76	4	32.80	4.87	0.96	−2.24	0.21	3.41
167	Q561M8	Cps1 protein (Fragment)	Cps1	6.81	1	32.20	9.25	1.56	−1.53	−0.63	2.46
501	P35564	Calnexin	Canx	29.94	3	67.20	4.64	1.64	3.27	1.17	−0.45
1847	P63323	40S ribosomal protein S12	Rps12	12.78	1	14.50	7.24	3.12	1.69	−0.99	0.43
1406	Q6ZQI3	Malectin	Mlec	17.11	2	32.30	6.05	3.69	0.48	0.20	3.42
1406	D3YYJ7	Pentaxin	Mptx2	5.58	1	24.50	8.90	3.69	0.48	0.20	3.42

Of the repeated protein candidates, only the putative protein with highest score is shown in this table. Repeats are shown in Supplementary Table S2.1 and S2.2. Average fold change in axis refers to changes in villus compared to its respective crypt within same genotype. Average fold change between the villi or the crypt refers to changes between two different genotypes. (−) Sign refers to downward fold change.

^aSpot Number: Spot identity in gel.

^bAccession ID: Unique identifier of the protein based on FASTA database.

^cScore: Total score of the protein based on individual peptides.

^dUnique peptides: Number of peptide sequence unique to the protein group.

^eProtein pI: Theoretical isoelectric point based on protein molecules.