Identification of expressed genes in regenerating rat liver in 0-4-8-12 h short interval successive partial hepatectomy

Table 1 Genes related to LR altered in SISPH.

No.	Gene description	Fold difference
Unreported genes
1	CH230-206C20	0.3
2	CH230-403C20	0.5
3	CH230-329D3	2.2
4	CH230-372C24	0.1
5	CH230-7A22	0.1
6	CH230-11N5	2.1
7	CH230-4L11	3.5
8	CH230-211F21	0.4
9	CH230-155H3	0.5
10	CG31759-PA	2.9
11	Citb585c7	0.2
12	D930042H13	0.3
13	DNA segment of Chr 1 (Wsu94)	3.8
14	DNA segment of Chr 17 (Wsu94)	2
15	KIAA0205	0.4
16	KIAA1376	0.4
17	LOC303588	2
18	LOC333273	2.9
19	LRRP Cc1-27	0.3
20	LRRP Aa2-028	3.1
21	LRRP Aa2-111	0.2
22	LRRP Aa2-174	0.3
23	LRRP Aa2-258	0.5
24	LRRP Ab1-021	9.1
25	LRRP Ab1-022	0.5
26	LRRP Ab1-114	3.5
27	LRRP Ab1-216	3.5
28	LRRP Ab1-334	4.4
29	LRRP Ab2-001	0.3
30	LRRP Ab2-034	0.3
31	LRRP Ab2-037	0.5
32	LRRP Ab2-051	2.1
33	LRRP Ab2-131	0.3
34	LRRP Ab2-132	0.4
35	LRRP Ab2-225	0.3
36	LRRP Ab2-232	0.2
37	LRRP Ab2-255	0.2
38	LRRP Ab2-371	0.1
39	LRRP Ab2-389	0.5
40	LRRP Ab2-402	0.2
41	LRRP Ab2-416	0.3
42	LRRP Ab2-417	0.2
43	LRRP Ab2-427	0.5
44	LRRP Ab2-440	0.3
45	LRRP Ac1-060	0.3
46	LRRP Ac1-158	2.1
47	LRRP Ac1-177	7.3
48	LRRP Ac1-233	5.6
49	LRRP Ac1-873	4.6
50	LRRP Ac2-061	6.4
51	LRRP Ac2-067	2.6
52	LRRP Ac2-143	2
53	LRRP Ac2-210	2.3
54	LRRP Ba1-647	3.3
55	LRRP Bm403207	7.7
56	LRRP Cb1-727	0.4
57	LRRP Cb1-739	2.2
58	LRRP Cc1-27	0.3
59	LRRP Cc1-38	0.1
60	LRRP Cc1-9	3.5
61	LRRP zbs559	3.5
62	LRRPAb2-132	0.2
63	MGC10946	2.8
64	MGC38937	2.4
65	MGC5178	0.4
66	mKIAA0665	2.4
67	RIKEN 1300002A08	0.2
68	RIKEN 1600027G01	0.3
69	RP11-281N10	0.3
70	RP11-586K2	2.6
71	RP23-100C5	2
72	RP23-165H7	0.5
73	RP23-235O1	0.4
74	RP23-28G130	2.3
75	RP23-32O9	2.3
76	RP23-417P22	0.3
77	RP23-476D16	1.6
78	RP23-480P21	2.9
79	RP23-92K11	2.9
80	RP24-347B22	0.3
81	Rp32-28p17	0.3
82	U48828	2.4
83	Adult male liver cDNA	0.1
84	Mouse mRNA	0.4
85	Open reading frame 31	0.5
86	13 d embryo liver cDNA	3.6
Stress response
87	Acute-phase protein alpha-1-inhibitor 3	0.3
88	alpha-1 major acute phase protein prepeptide	6.8
89	Angiotensinogen (Agt)	11.5
90	Kininogen	2.5
91	T-kininogen (Kng)	5
Glycometabolism
92	alpha enolase (Enolase 1)	2.7
93	Isocitrate dehydrogenase 1 (Idh1)	0.1
94	3-Phosphoglycerate dehydrogenase	2.2
Fatty and stearoyl metabolism
95	Bile acid CoA ligase	2
96	Malonyl-CoA decarboxylase	0.4
97	Methylmalonate semialdehyde dehydrogenase	0.4
98	P450 cholesterol 7-alpha-hydroxylase (P450 VII)	0.1
99	NAD (P) dependent steroid dehydrogenase	0.1
100	3-alpha-hydroxysteroid dehydrogenase	0.1
Oxidation and reduction
101	Acyl-coA oxidase	0.5
102	Alcohol dehydrogenase (ADH)	0.1
103	Cytochrome b5 (Cyb5)	0.3
104	Cytochrome P450	0.3
105	Cytochrome P450 15-beta gene (Cyp2c12)	0.4
106	Cytochrome P450 2E1	0.2
107	Cytochrome P450, 2c39 (Cyp2c39)	0.3
108	Cytochrome P450 (PNCN inducible, Cyp3A1)	0.4
109	Flavin-containing monooxygenase 1 (Fmo1)	0.1
110	Peroxisomal sarcosine oxidase (PSO)	0.1
111	Plasma selenoprotein P1 (Sepp1)	0.4
112	Small subunit precursor of RuBPCase	0.1
Regulation proteins
113	G-protein beta polypeptide 2-like 1 (Gnb2l1)	2.1
114	II-Protein with tetratricopeptide repeats 3	0.2
115	RAKb	0.2
Glycoproteins
116	apha-1-B glycoprotein (A1bg)	0.3
117	Fibronectin 1 (Fn1)	3
118	Fibrinogen, gamma polypeptide (Fgg)	8
119	Myelin-associated glycoprotein (L-MAG)	8.4
120	UDP-glucuronosyltransferase 2B3 (Udpgt)	0.4
121	TRAM1	0.3
Lipid-proteins
122	Adipose differentiation-related protein	4.6
123	Solute carrier family 20, mem 1 (Slc20a1)	0.4
Nucleolar proteins
124	Damage-specific DNA binding protein 1 (Ddb1)	0.5
125	Nuclear protein 1 (Nupr1)	2.9
126	Nucleolar protein family A, mem 2	2.9
127	ORF2 endonuclease and Rnase H	0.5
128	RNase A family 4	0.3
Receptors
129	ATP-binding cassette, sub-family B	0.5
130	ATP-binding cassette, sub-family C	0.1
131	Interleukin 1 receptor, type I (Il1r1)	7.3
132	Nuclear receptor subfamily 0, member 2 (Nr0b2)	0.4
Factors
133	Amphoterin	0.5
134	Angiogenin	0.4
135	Eukaryotic translation initiation factor 4A1	3.5
136	Early growth response factor 1 (Egr1)	4.3
137	Neuropeptide Y (Npy)	11.3
138	NF-E2-related factor 2 (Nfe2l2)	0.3
139	Pre-B-cell colony-enhancing factor (Pbef)	5.3
140	ADP-ribosylation factor 3 (Arf3)	0.8
141	Angiopoietin-like 3	0.3
Hemoglobins
142	Hemoglobin, alpha 1 (Hba1)	2.4
143	Hemoglobin beta chain (Hbb)	2.5
Immunological proteises
144	Achaete-scute complex homolog-like 1 (Ascl1)	0.4
145	Complement component 5 (C5)	19.4
146	Complement component 6 (C6)	0.4
147	Immunoglobulin C kappa gene	0.3
148	JE/MCP-1	2.5
Cytoskelets
149	Actin -beta	2.3
150	Actin gamma	5.1
151	Keratin 8 (Krt8)	2.8
Marker proteins
152	alpha globin	2.4
153	Amyloid a-5 protein	53.9
154	Subchromosomal transferable fragment	0.4
Amino acid enzymes
155	Arginase 1 (Arg1)	6.4
156	Argininosuccinate lyase (Asl)	5.6
157	Cytosolic aspartate aminotransferase	6.8
158	2-Hydroxyphytanoyl-CoA lyase (Hpcl2)	0.3
Proteolytic enzymes
159	Cathepsin C (Ctsc)	0.4
160	Cathepsin D (Ctsd)	0.5
161	Coagulation factor 2 (F2)	0.5
162	Neutrophil collagenase (Mmp8)	0.2
Proteinase inhibitors
163	alpha-2-macroglobulin (A2m)	5.1
164	alpha-trypsin inhibitor heavy chain	0.4
165	Contrapsin-like protease inhibitor related protein	6.1
166	Leuserpin-2 (Serpind1)	0.3
167	Serine protease inhibitor 1	5.6
Phosphorylase
168	CDK103	1.2
169	Purine-nucleoside phosphorylase	0.3
Phosphatases
170	Phosphatidylserine-specific phospholipase A1	4.9
171	Pyrophosphatase/phosphodiesterase 1(Enpp1)	3.1
172	Protein phosphatase 1 (GL-subunit)	0.2
Synthase
173	Carbamyl phosphate synthetase I	2.5
174	Fatty acid elongase 1 (rELO1)	0.1
175	Glutamyl-prolyl-tRNA synthetase (Eprs)	2.2
176	RNA cyclase	2
Transferases
177	Glutathione S-transferase, alpha 1 (Gsta1)	0.3
178	Glutathione S-transferase, type 3 (Yb3) (Gstm3)	0.5
179	Glutathione S-transferase Y(b) subunit	0.5
180	Serine hydroxymethyl transferase 1	0.4
181	Sialyltransferase 1 (Siat1)	0.2
182	Sulfotransferase K2	0.2
183	UDP-glucuronosyltransferase 2, mem 5 (Ugt2b5)	0.5

Table 2 Comparison of difference of gene expression in SISPH with that in PH.

Gene description	Change
	SISPH	PH
Unreported genes
CH230-206C20	0.3	0.3
CH230-403C20	0.5	0.2
CH230-372C24	0.1	0.1
CH230-7A22	0.1	0.1
CH230-11N5	2.1	4.5
CH230-4L11	3.5	4.5
CG31759-PA	2.9	0.5
D930042H13	0.3	0.3
LRRP Cc1-27	0.3	0.3, 2.1
LRRP Aa2-028	3.1	3
LRRP Aa2-174	0.3	0.1
LRRP Ab1-021	9.1	10
LRRP Ab1-022	0.5	8.1
LRRP Ab1-114	3.5	4.2
LRRP Ab1-216	3.5	6.8
LRRP Ab1-334	4.4	2.7
LRRP Ab2-001	0.3	0.2
LRRP Ab2-132	0.4	0.1
LRRP Ab2-225	0.3	0.3
LRRP Ab2-232	0.2	0.2
LRRP Ab2-371	0.1	0.4
LRRP Ab2-402	0.2	0.1
LRRP Ab2-417	0.2	0.2
LRRP Ab2-427	0.5	0.4
LRRP Ab2-440	0.3	0.3
LRRP Ac1-060	0.3	0.4, 2.3
LRRP Ac1-177	7.3	0.5, 4.9
LRRP Ac1-233	5.6	4.2
LRRP Ac1-873	4.6	0.3
LRRP Ac2-061	6.4	7.6
LRRP Ac2-067	2.6	2.5
LRRP Ac2-143	2	3.3
LRRP Ac2-210	2.3	2.4
LRRP Ba1-647	3.3	3.2
LRRP Bm403207	7.7	2.9
LRRP Cb1-739	2.2	2.3
LRRP Cc1-27	0.3	0.1, 2.2
LRRP Cc1-38	0.1	0.2
LRRP Cc1-9	3.5	3.6
LRRP zbs559	3.5	3.1
LRRPAb2-132	0.2	0.1
MGC10946	2.8	2.8
MGC5178	0.4	0.4
RIKEN 1300002A08	0.2	0.3, 2.4
RIKEN 1600027G01	0.3	0.1
RP11-281N10	0.3	0.2
RP23-100C5	2	3
RP23-235O1	0.4	0.2
RP23-32O9	2.3	2.8
RP23-417P22	0.3	0.1
Rp32-28p17	0.3	0.3
U48828	2.4	0.2
Open reading frame 31	0.5	0.3, 2.8
13 d embryo liver cDNA	3.6	5.9
Stress response
alpha-1 major acute phase protein prepeptide	6.8	66.4
Angiotensinogen (Agt)	11.5	8.4
Kininogen	2.5	5.9
T-kininogen (Kng)	5	0.2
Glycometabolism
Alpha enolase (Enolase 1)	2.7	3.9
Isocitrate dehydrogenase 1 (Idh1)	0.1	0.2
Fatty and stearoyl metabolism
Bile acid CoA ligase	2	2.3
Malonyl-CoA decarboxylase	0.4	0.3
Methylmalonate semialdehyde dehydrogenase	0.4	0.2
3-alpha-hydroxysteroid dehydrogenase	0.1	0.2
Oxidation and reduction
Alcohol dehydrogenase (ADH)	0.1	0.1, 2.4
Cytochrome b5 (Cyb5)	0.3	0.2
Cytochrome P450	0.3	0.2
Cytochrome P450 15-beta gene (Cyp2c12)	0.4	0.2
Cytochrome P450 2E1	0.2	0.1
Cytochrome P450, 2c39 (Cyp2c39)	0.3	0.1
Cytochrome P450 (PNCN inducible, Cyp3A1)	0.4	0.2
Flavin-containing monooxygenase 1 (Fmo1)	0.1	0.1
Peroxisomal sarcosine oxidase (PSO)	0.1	0.1
Plasma selenoprotein P1 (Sepp1)	0.4	0.3
Small subunit precursor of RuBPCase	0.1	0.1, 3.3
Regulation proteins
G-protein beta polypeptide 2-like 1 (Gnb2l1)	2.1	2.4
II-Protein with tetratricopeptide repeats 3	0.2	0.2
RAKb	0.2	0.2
Glycoproteins
apha-1-B glycoprotein (A1bg),	0.3	0.3
Fibronectin 1 (Fn1)	3	7.2
Fibrinogen, gamma polypeptide (Fgg)	8	5.1
Myelin-associated glycoprotein (L-MAG)	8.4	0.3
UDP-glucuronosyltransferase 2B3 (Udpgt)	0.4	0.3
TRAM1	0.3	0.4, 3.3
Lipid-proteins
Adipose differentiation-related protein	4.6	7.3
Solute carrier family 20, mem1 (Slc20a1)	0.4	0.4
Nucleolar proteins
Damage-specific DNA binding protein 1 (Ddb1)	0.5	0.3
Nuclear protein 1 (Nupr1)	2.9	0.5, 5.1
Nucleolar protein family A, mem 2	2.9	3.9
ORF2 endonuclease and Rnase H	0.5	0.4
RNase A family 4	0.3	0.2
Receptors
ATP-binding cassette, sub-family C	0.1	0.2
Interleukin 1 receptor, type I (Il1r1)	7.3	7.9
Nuclear receptor subfamily 0, member 2 (Nr0b2)	0.4	0.2
Factors
Amphoterin	0.5	0.3
Angiogenin	0.4	0.2
Eukaryotic translation initiation factor 4A1	3.5	3.8
Early growth response factor 1 (Egr1)	4.3	3.5
Neuropeptide Y (Npy)	11.3	18.1
NF-E2-related factor 2 (Nfe2l2)	0.3	0.4
Pre-B-cell colony-enhancing factor (Pbef)	5.3	3.3
Angiopoietin-like 3	0.3	0.2
Hemoglobins
Hemoglobin, alpha 1 (Hba1)	2.4	0.3
Hemoglobin beta chain (Hbb)	2.5	0.3
Immunological proteises
Complement component 5 (C5)	19.4	16.5
Immunoglobulin C kappa gene	0.3	0.3
JE/MCP-1	2.5	4
Cytoskelets
Actin gamma	5.1	4.8
Keratin 8 (Krt8)	2.8	3.8
Marker proteins
Amyloid a-5 protein	53.9	90.4
Subchromosomaltransferable fragment	0.4	0.3, 2.4
Amino acid enzymes
Arginase 1 (Arg1)	6.4	3.5
Argininosuccinate lyase (Asl)	5.6	4.9
Cytosolic aspartate aminotransferase	6.8	7.4
2-Hydroxyphytanoyl-CoA lyase (Hpcl2)	0.3	0.4
Proteolytic enzymes
Cathepsin C (Ctsc)	0.4	0.4
Cathepsin D (Ctsd)	0.5	0.3
Coagulation factor 2 (F2)	0.5	0.2
Neutrophil collagenase (Mmp8)	0.2	0.2
Proteinase inhibitors
alpha-2-macroglobulin (A2m)	5.1	21.3
alpha-trypsin inhibitor heavy chain	0.4	0.2
Contrapsin-like protease inhibitor related protein	6.1	6.6
Leuserpin-2 (Serpind1)	0.3	0.2
Serine protease inhibitor 1	5.6	5
Phosphatases
Phosphatidylserine-specific phospholipase A1	4.9	2.8
Pyrophosphatase/phosphodiesterase 1(Enpp1)	3.1	5
Protein phosphatase 1 (GL-subunit)	0.2	0.2
Synthase
Carbamyl phosphate synthetase I	2.5	2.9
Glutamyl-prolyl-tRNA synthetase (Eprs)	2.2	4.5
RNA cyclase	2	0.2
Transferases
Glutathione S-transferase, alpha 1 (Gsta1)	0.3	0.1
Glutathione S-transferase, type 3 (Yb3) (Gstm3)	0.5	0.3, 2.2
Glutathione S-transferase Y(b) subunit	0.5	0.3
UDP-glucuronosyltransferase 2 , mem 5 (Ugt2b5)	0.5	0.3