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Table 1 List of genes identified by literature mining that are modulated by elevated level of homocysteine

From: Mining literature for a comprehensive pathway analysis: A case study for retrieval of homocysteine related genes for genetic and epigenetic studies

S.NO Symbol Gene Name Function
1 Adk Adenosine kinase Methionine Metabolism
2 Agt1 Angiotensin I Renin – Angiotensin
3 Ahcyl1 S-adenosylhomocysteine hydrolase – like Methionine Metabolism
4 Bax BCL2-associated × protein Apoptosis
5 Bcl-2 B-cell cll/lymphoma 2 Apoptosis
6 Bhmt2 Betaine-homocysteine methyltransferase2 Methionine Metabolism
7 Calm1 Calmodulin 1 Signaling
8 Proxy1/Cap43 Protein regulated by oxygen 1 Hypoxia
9 Casp12 caspase-12 Apoptosis
10 Casp3 caspase-3 Apoptosis
11 Cav3 Caveolin Apoptosis
12 Ccr2 Chemokine receptor 2 Atherosclerosis
13 Cdk2 Cyclin-dependent kinase 2 Apoptosis
14 Cetp Cholesteryl ester transfer protein Lipid metabolism
15 Cgrp Calcitonin gene related peptide Signaling
16 Cck Cholecystokinin Insulin secretion
17 Clu Clusterin Apoptosis
18 Cmyc Myc proto-oncogene protein Apoptosis
19 Cnp C-type natriuretic peptide Vasorelaxant activity.
20 Crp C-AMP receptor protein Apoptosis/signaling
21 Cubn Cubilin Vitamin B12 Transport
22 Cx43 Connexin43 Integral to plasma membrane/Signaling
23 Ccna1 Cyclin A1 Cell cycle
24 clcn Chloride ion channel gene Chloride transport
25 Cyc Cytochrome Apoptosis
26 Demethylase Demethylase Metabolism
27 Dhfr Dihydrofolate reductase Metabolism
28 Dnmt1 DNA Methyltransferase 1 Metabolism
29 Dnmt2 DNA Methyltransferase 2 Metabolism
30 Dnmt3a DNA Methyltransferase 3 Metabolism
31 Erk2 Extracellular Signal-Regulated Kinase 2 Signalling
32 Fak Focal adhesion kinase Apoptosis
33 Fbp1/ Folr1 Folate-Binding Protein1 Folate transport
34 Fbp2 Folate-Binding Protein2 Folate transport
35 G6pdh Glucose-6-phosphate dehydrogenase Metabolism
36 Gad67 Glutamic acid decarboxylase 67 Apoptosis
37 Gadd153 Glutamic acid decarboxylase 153 Apoptosis
38 Gadd45 Glutamic acid decarboxylase 45 Apoptosis
39 Gata4 GATA-Binding Protein 4 Transcription factor
40 GPX1 Glutathione Peroxidase Anti-oxidant
41 Gsh1 GS homeobox 1 Transcription Factor
42 Grp78 Glucose related protein 78 Apoptosis
43 Grp94 Glucose related protein 98 Apoptosis
44 H2B Histone 2B Histone protein
45 H3 Histone 3 Histone protein
46 HDACs Histone deacetylases Histone Deacetylation
47 Hmgcr Hydroxy-3-Methylglutaryl-Coa Reductase Lipid metabolism
48 Hmt Homocysteine-S-methyltransferase Metabolism
49 Ikβα Inhibitor Of Kappa Light Chain Gene Enhancer Signaling
50 IL-1 Interleukin 1 Signaling
51 IL-6 Interleukin 6 Signaling
52 IL-8 Interleukin 8 Signaling
53 Inmt Indolethylamine N-methyltransferase Protein methylation
54 iNOS Inducible Nitric Oxide Synthase Nitric oxide stress
55 Interferon Interferon Signaling
56 Ifg Ifngamma Signaling
57 Ldhd D-Lactate Dehydrogenase Metabolism
58 Ldlr Low Density Lipoprotein Receptor Lipid metabolism
59 Lpl Lipoprotein lipase Lipid metabolism
60 Lox1 Lectin like oxidized LDL receptor-1 Lipid Transport
61 Lpa Apolipoprotein Lipid metabolism
62 lyase Lyase Lipid metabolism
63 Mcp1 Monocyte Chemoattractant Protein 1 Atherosclerosis
64 Mbd2 Methyl-CpG-Binding Domain Protein 2 Methylation binding protein
65 Mecp2 Methyl-CpG-Binding Protein 2 Methylation binding protein
66 Mapk/Mek Mitogen-Activated Protein Kinase Kinase Signalling
67 Mgmt O6-methylguanine-DNA methyltransferase Apoptosis
68 Mmp3 Matrix metalloproteinase 3 Remodeling of extracellular matrix
69 Mtap Methyl Thioadenosine Phosphorylase Metabolism
70 Mtase Methyltransferase Metabolism
71 NF-Kβ Nuclear Factor Kappa-B Signaling
72 Nmda N-methyl-D-aspartate receptors Alzheimer Disease
73 Nos2 Nitric Oxide Synthase 2 Nitric oxide Synthesis
74 P21 ras P21 ras Signaling
75 P38 Serine /threonine protein kinase belong to MAPK subfamily Apoptosis
76 P53 Tumor protein p53 Apoptosis
77 Pai-1 Plasminogen Activator Inhibitor-1 Blood coagulation
78 Pam Peptidylglycine alpha-amidating monooxygenase Neuro peptide amidation
79 Icmt/Pcmt Isoprenylcysteine Carboxylmethyltransferase Signaling.
80 Pdgf Platelet-derived growth factor Inhibits apoptosis
81 Pemt Phosphatidylethanolamine (PE) N-Methyltransferase Methylation of PE
82 Pkc Protein kinase C Apoptosis
89 Ppar alpha Peroxisome Proliferator-Activated Receptor-Alpha Signaling
84 PPARgamma2 Proliferator-Activated Receptor-Gamma2 Signaling
85 Prmt Protein Arginine N-Methyltransferase Protein methylation
86 Ps1 Presenilin 1 Alzheimer Disease
87 S3a Ribosomal protein S3A Structural constituent of Ribosome
88 Smap8 smooth muscle-associated protein 8 Signaling
89 Srebp1 sterol regulatory element binding protein-1 Lipid Transport
90 Sst Somatostatin Alzheimer Disease
91 Tdag51 T-cell death-associated gene 51 Apoptosis
92 TGFbeta Transforming growth factor beta Apoptosis
93 TNFalpha tumor necrosis factor alpha Signaling
94 TNFRSF1B Tumor necrosis factor receptor 2 gene Signaling
95 Timp1 Tissue Inhibitor Of Metalloproteinase 1 Signaling
96 tPA Tissue-type plasminogen activator Blood Coagulation
97 Vcam 1 Vascular Cell Adhesion Molecule 1 Cell adhesion/Signaling
98 Yy1 Yin Yang 1 Transcription factor
99 F2 Coagulation factor II Blood Coagulation
100 HemK/PrmC N5-glutamine AdoMet-dependent methyltransferase Methylation
101 ABCC2 ATP-Binding Cassette subfamily C Cellular cisplatin transporter.
102 Ace Angiotensin converting enzyme Renin – Angiotensin
103 Nat1 arylamine N-acetyltransferase type-1 Detoxification of a plethora of hydrazine and arylamine drugs
104 Gnmt Glycine N-Methyltransferase Methylation
105 Apo B Apolipoproteine B Lipid metabolism
106 Ins Insulin Signalling
107 Sod Super Oxide Dismutase Anti-oxidant
108 ApoC3 Apolipoprotein C-III Lipid metabolism
109 Atf3 Activating transcription factor Transcription factor
110 Ap1 activating protein-1 Transcription factor
111 Fcmt Farnesylcysteine methyltransferase Methylation
112 Hmox Heme oxygenase Biliverdin metabolism