Gastric Cancer
Copyright ©2005 Baishideng Publishing Group Inc.
World J Gastroenterol. Apr 28, 2005; 11(16): 2390-2397
Published online Apr 28, 2005. doi: 10.3748/wjg.v11.i16.2390
Table 1 Clinical and pathological data of five patients with gastric cancer.
Number of In-PNameSexAge (yr)Pathological diagnosisLymph metastasisClinical stage
113702JiangF45Lesser curvature of stomach invasion ulcer type moderate differentiation adenocarcinoma invasion serosa1/35III
123730XuM48Anterior wall in body of stomach moderate differentiation adenocarcinoma invasion muscular layers and nerve1/17III
123673TangF57Lesser curvature in cardia of stomach invasion ulcer type moderate differentiation adenocarcinoma invasion serosa1/14III
123808YuF49Anterior wall in cardia of stomach poor-moderate differentiation adenocarcinoma, a part of mucinous adenocarcinoma and esophagus of extremities inferior0/35II
123733HuangM60Cardia of stomach node type moderate differentiation adenocarcinoma invasion muscular layer esophagus5/22III
Table 2 Differentially expressed gene number in T, P and C.
Numbers of genesUp-regulated
Down-regulated
SLR>2SLR>3SLR <-2SLR <-3
T vs C530157236113
P vs C5017147
T and P vs C108213517
Table 3 Up-regulated and down-regulated genes.
Probe Set IDT vs C SLRP vs C SLRNameGO molecular function
202580-x-at22.4Forkhead box M1GO:3702; RNA polymerase II transcription factor activity; traceable author statement
GO:3700; transcription factor activity; traceable author statement
203098-at2.32.4Chromodomain protein, Y chromosome-likeGO:3682; chromatin binding; inferred from electronic annotation
GO:3824; enzyme activity; inferred from electronic annotation
203334-at3.13.8DEAD/H (Asp-Glu-Ala-Asp/His)GO:3723; RNA binding; inferred from electronic annotation box polypeptide 8 (RNA helicase)
GO:8248; pre-mRNA splicing factor activity; traceable author statement
GO:5524; ATP binding; inferred from electronic annotation
GO:4004; ATP dependent RNA helicase activity; traceable author statement
208152-s-at1.92.1DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 21GO:3723; RNA binding; inferred from electronic annotation
GO:5524; ATP binding; inferred from electronic annotation
GO:4004; ATP dependent RNA helicase activity; traceable authorstatemen
209820-s-at2.22.3Transducin (beta)-like 3GO:5057; receptor signaling protein activity; predicted/computed
217173-s-at3.43.6Low density lipoprotein receptor (familial hypercholesterolemia)GO:5041; low-density lipoprotein receptor activity; traceable author statement
GO:5509; calcium ion binding; inferred from electronic annotation
GO:8034; lipoprotein binding; traceable author statement
GO:5319; lipid transporter activity; inferred from electronic
207102-at-2.4-3.6Aldo-keto reductase family 1, member D1 (delta 4-3-ketosteroid-5-beta-reductase)GO:5489; electron transporter activity; experimental evidence
208580-x-at-2.7-3H4 histone family, member E (H4FE)Unknown
218730-s-at-2.5-3.3Osteoglycin (osteoinductive factor, mimecan)GO:8083; growth factor activity; inferred from electronic annotation
Table 4 Comparison between gene molecular functions of T, P and C.
Molecular functionUp-regulated (SLR> 2)Down-regulated (SLR <-2)
Enzyme activity154
Enzyme regular activity40
Structural molecule activity31
Transcription factor activity30
Nucleic acid binding (RNA, DNA)165
Protein binding activity (Ca , GF, cell skeleton)147
Carbohydrate binding activity30
Metal ion binding activity10
Signal transduction activity (receptor, GF)73
Sport activity21
Transporter activity (electron, ion, protein)76
Tumor antigen20
Tumor suppressor30
Apoptosis suppressor10
Fibrinogen01
Unknown277
Total10835
Table 5 Comparison between molecular functions of 21 genes in T, P and C.
Probe Set IDT vs C SLRP vs C SLRNameGO molecular function
201655-s-at3.12.6Heparan sulfateGO:5198; structural molecule activity; inferred from electronic annotation
proteoglycan 2 (perlecan)GO:5206; heparin sulfate proteoglycan; traceable author statement
201890-at3.11.6Ribonucleotide reductaseGO:4748; ribonucleoside-diphosphate reductase activity;non-traceable
M2 polypeptideauthor statement
GO:16491; oxidoreductase activity; inferred from electronic annotation
201926-s-at3.11Decay accelerating factor for complement (CD55, Cromer blood group system)Unknown
203334-at3.13.8DEAD/H (Asp-Glu-Ala—Asp/His) box polypeptide 8(RNA helicase)GO:3723; RNA binding; inferred from electronic annotation
GO:8248; pre-mRNA splicing factor activity; traceable author statement
GO:5524; ATP binding;inferred from electronic annotation
GO:4004; ATP dependent RNA helicase activity; traceable author statement
202870-s-at3.31.5CDC20 cell division cycle 20 homolog (S. cerevisiae)Unknown
209035-at3.31.6Midkine (neurite growth- promoting factor 2)GO:8201; heparin binding; not recorded
GO:8083; growth factor activity; not recorded
GO:5125; cytokine activity; not recorded
209803-s-at3.41.8Tumor suppressing subtransferable candidate 3Unknown
212444-at3.41.2Homo sapiens, clone IMAGE:4471726, mRNAUnknown
217173-s-at3.43.6Low density lipoprotein receptor (familial hypercholesterolemia)GO:5041; low-density lipoprotein receptor activity; traceable author statement
GO:5509; calcium ion binding; inferred from electronic annotation
GO:8034; lipoprotein binding; traceable author statement
GO:5319; lipid transporter activity; inferred from electronic
217221-x-at3.52.2RNA binding motif protein 10GO:3676; rrm; nucleic acid binding activity; 8.4e-05; extended: inferred from electronic annotation
GO:3676; rrm; nucleic acid binding activity; 0.76; extended: inferred from electronic annotation
202855-s-at3.61.2Solute carrier family 16 (monocarboxylic acid transporters), member 3GO:8028; monocarboxylic acid transporter activity; traceable author statement
GO:15355; monocarboxylate porter activity; inferred from electronic annotation
GO:15293; symporter activity; inferred from electronic annotation
203559-s-at3.61.2Amiloride binding protein 1(amine oxidase (copper-containing))GO:8144; drug binding;not recorded
GO:8201; heparin binding; inferred from electronic annotation
GO:8122; amine oxidase (copper-containing) activity; inferred from electronic annotation
GO:16491; oxidoreductase activity; inferred from electronic annotation
209373-at3.81.6BENE proteinUnknown
203108-at4.21.5Retinoic acid induced 3GO:8067; metabotropic glutamate, GABA-B-like receptor activity; inferred from electronic annotation
GO:4872; receptor activity; inferred from electronic annotation
202067-s-at4.53.8Low density lipoprotein receptor (familial hypercholesterolemia)GO:5041; low-density lipoprotein receptor activity; traceable author statement
GO:5509; calcium ion binding; inferred from electronic annotation
GO:8034; lipoprotein binding; traceable author statement
GO:5319; lipid transporter activity; inferred from electronic
218900-at4.53.7Cyclin M4Unknown
201884-at4.62.1Carcinoembryonic antigen-related cell adhesion molecule 5GO:8222; tumor antigen; traceable author statement
211657-at5.92.1Carcinoembryonic antigen- related cell adhesion molecule 6GO:8222; tumor antigen; traceable author statement
212768-s-at4.71.3Differentially expressed in hematopoietic lineagesUnknown
208250-s-at6.31.7Deleted in malignant brain tumors 1GO:8181; tumor suppressor; predicted/computed
GO:5044; SRCR; scavenger receptor activity; 3.7e-42;extended: unknown
204855-at7.74.2Serine (or cysteine) proteinase inhibitor, clade B (ovalbumin) member 5GO:4868; serpin; not recorded GO:4867; serine protease nhibitor activity; inferred from electronic annotation
GO:8181; tumor suppressor; traceable author statement serp
Table 6 Comparison between molecular functions of 17 genes in T, P and C.
Probe Set IDT vs C SLRP vs C SLRNameGO molecular function
207102-at-2.4-3.6Aldo-keto reductase family 1, member D1 (delta 4-3-ketosteroid-5- beta-reductase)GO:5489; electron transporter activity; experimental evidence
218730-s-at-2.5-3.3Osteoglycin (osteoinductive factor, mimecan)GO:8083; growth factor activity; inferred from electronic annotation
204940-at-3.3-1.3PhospholambanGO:42030; ATPase inhibitor activity; inferred from electronic annotation
GO:5246; calcium channel regulator activity; not recorded
208281-x-at-3.3-1.1Deleted in azoospermia 3GO:3676; nucleic acid binding; inferred from electronic annotation
216351-x-at-3.3-1.6Deleted in azoospermia 4Unknown
209894-at-3.7-1.5Leptin receptorGO:4896; hematopoietin/interferon-class (D200-domain) cytokine receptor activity; inferred from electronic annotation
214723-x-at-3.7-1.5KIAA1641 proteinUnknown
208282-x-at-4.3-1.2Deleted in azoospermia 2GO:3676; nucleic acid binding; inferred from electronic annotation
219564-at-4.3-1.2Potassium inwardly- rectifying channel, subfamily J, member 16GO:5242; inward rectifier potassium channel activity; inferred from electronic annotation
GO:5244; voltage-gated ion channel activity; inferred from electronic annotation
GO:5267; potassium channel activity; inferred from electronic annotation
203571-s-at-4.8-1.6Adipose specific 2Unknown
218087-s-at-5-1.3Sorbin and SH3 domain containing 1GO:8092; cytoskeletal protein binding; experimental evidence
GO:3779; actin binding; experimental evidence
207909-x-at-5.2-1.2Deleted in azoospermiaGO:3676; rrm; nucleic acid binding activity; 4.3e-10; extended: inferred from electronic annotation
GO:3723; RNA binding; predicted/computed
213071-at-5.3-1.3DermatopontinGO:5515; protein binding; traceable author statement
GO:5194; cell adhesion molecule activity; inferred from electronic annotation
201497-x-at-5.4-1Myosin, heavy polypeptide 11, smooth muscleGO:3779; actin binding; inferred from electronic annotation
GO:5516; calmodulin binding; inferred from electronic annotatio
GO:5524; ATP binding; inferred from electronic annotation
GO:3774; motor activity; inferred from electronic annotation
207912-s-at-5.9-1.3Deleted in azoospermiaGO:3676; rrm; nucleic acid binding activity; 4.3e-10;extended:inferred from electronic annotation
GO:3723; RNA binding;predicted/computed
220630-s-at-6.3-1.8Eosinophil chemotactic cytokineGO:16787; Glyco_hydro_18; hydrolase activity; 2.7e-81; extended:Unknown
GO:16798; hydrolase activity, acting on glycosyl bonds;inferred from electronic annotation
GO:8061; chitin binding;inferred from electronic annotation
GO:8843; endochitinase activity; inferred from electronic annotation
209612-s-at-6.9-1.4Alcohol dehydrogenase IB (class I), beta polypeptideGO:4024; alcohol dehydrogenase activity, zinc-dependent;traceable author statement
GO:4327; 1.2.1.1; formaldehyde dehydrogenase (glutathione) activity; 3.69e-120; extended: inferred from electronic annotation
GO:4023; alcohol dehydrogenase activity, metal ion- independent; inferred from electronic annotation
GO:4025; alcohol dehydrogenase activity, iron-dependent;inferred from electronic annotation
GO:8270; zinc ion binding; traceable author statement
GO:4552; 1.1.1.73; octanol dehydrogenase activity; 4.76e-120; extended: non-traceable author statement
GO:16491; oxidoreductase activity; inferred from electronic annotation
GO: 5489; electron transporter activity; traceable author statement