Changes in gene-expression profiles of colon carcinoma cells induced by wild type K-ras2

Table 1 Biological function of genes with down-regulated expression

Gene	Chromosomal localization	Biological function	Cy5/Cy3
NDP	Xp11.4	Cross-cell signal transmission, signal transduction, NS development	4.509
SSX4	Xp11.23	Transcription regulation, immunoreaction	4.044
CASP1	11q23	Positive regulation of I-kappaB kinase/NF-kappaB cascadereaction, signal transduction, apoptosis	3.754
HPRT1	Xq26.1	Cytolysis, lymphocyte proliferation, purine nucleotide synthesis	3.715
TM4SF2	Xp11.4	ECM	3.554
DXS1283E	Xp22.3	Unkown	3.418
DPYS	8q22	NS development, signal transduct-ion, nucleotide metabolism	3.386
TYRP1	9p23	Cell metabolism, melanin synthesis	3.358
CADPS	3p21.1	Calcium-regulated Exocytosis	3.238
MCF2	Xq27	Cytokeleton	3.187
COL4A6	Xq22	ECM and ECM synthesis	3.201
F13A1	6p25.3-p24.3	Transcriptional control	3.108
HTR2C	Xq24	IP3-induced signal pathway	3.061
IL13RA1	Xq24	ECM	3.050
OGT	Xq13	Signal transduction	3.030
TOSO	1q32.1	Defence reaction, anti-apoptosis	2.994
MAB21L1	13q13	Positive regulation of cell proliferation, visual development	2.990
CYBB	Xp21.1	Cross-cell signal transmission, chemotaxis, inflammation, signal transduction	2.972
STK9/CDKL5	Xp22	Microduct skeleton and its synthesis, histogenesis	2.946
PTPRG	3p21-p14	PTK signal pathway	2.878
ELAVL2	9p21	Transcriptional control	2.853
GLA	Xq22	Osteoclast differentce regulation,bone resorption, cell adhere	2.851
APXL	Xp22.3	Channel protein of sodium ion	2.839
SERPINA7	Xq22.2	ECM, transport of TH	2.833

Table 2 Biological function of genes with up-regulated expression

Gene	Chromosomal localization	Biological function	Cy5/Cy3
SZF1	3p21	Transcriptional control	0.181
MMP14	14q11-q12	Incision enzyme, proteolysis	0.186
WIT-1	11p13	Cell proliferation	0.189
LOC253012	7q21.3	Gas exchange, cell adhere, early nerve difference and axonogenesis	0.201
OPCML	11q25	Cell adhere, nerve identification	0.239
PLAU	10q24	Chemotaxis, proteolysis, transduction	0.258
MYC	8q24.12-q24.13	Positive-regulated cell proliferation, inhibit cell cycle, balance of iron ion, mRNA synthesis control	0.274
SNTB1	8q23-q24	Muscle contraction, skelet-matrix adhere	0.281
SERPINESL	7q21.3-q22	Ser incision enzyme inhibitor, cell component, angiogenetic regulation	0.290
C20A1	2q11-q14	PCD transport, cell component	0.294
SPTBN1	2p21	Cytokeleton	0.298
GNAS	20q13.2-q13.3	Energy metabolism, G-protein signal pathway, signal transduction	0.302
PCOLCE	7q22	Proteolysis, cell component	0.303
ENPP2	8q24.1	Cell movement, G-protein signal pathway, phosphorylation metabolism, lytic activity p'tase activity, transcription	0.309
CDK6	7q21-q22	Proliferation, cell cycle, protein conjunct	0.315
HIST2H2BE	1q21-q23	Chromosome component and synthesis	0.323
ZNF137	19q13.4	Transcription control, ion binding	0.332
IL1B	2q14	Inflammation, proliferation, chemotaxis	0.336
IL1A	2q14	Apoptosis, proliferation, transduction, chemotaxis	0.343
MTSS1	8p22	Actin component and synthesis, cell adhere, cell movement, PTK signal pathway, muscle and NS development, internalization	0.346
ACHE	7q22	Muscle contraction, transduction	0.353
EPHB4	7q22	Proliferation, organ-formation, angiogenesis	0.368
AZGP1	7q22.1	Cell member component	0.376
PDE4DIP	1q12	Protein synthesis, actin component	0.377
PITPN	17p13.3	PHL transport	0.379
MEOX1	17q21	Growth	0.386
GNB2L1	5q35.3	Intercellular signal cascade reaction, protein localization, transduction, PKC	0.394
MERTK	2q14.1	Transduction, cross-cell signal transmission, protein phosphorylation	0.405
CUTL1	7q22.1	Transcription control	0.419
FCGR2A	1q23	Immune reaction, signal switch, defence reaction, B cell proliferation	0.428
PAX8	2q12-q14	Organ-formation, transcription control, metanephros development, mRNA synthesis	0.442

Table 3 Functional classification of differentially expressed genes

Type of gene	Down-regulatedgenes (n)	Rate ofdown-regulatedgenes (%)	Up-regulatedgenes (n)	Rate ofup-reguletedgenes (%)
Metabolism-associated	18	14.88	3	12.50
Cell proliferation	30	24.79	3	12.50
Cell cycle	16	13.22	0	0
Signal transduction	18	14.88	8	33.30
Cytokelet	8	6.61	1	4.17
Transcription control	18	14.88	4	16.67
Cell adhere	11	9.09	1	4.17
Cell apoptosis	8	6.61	2	8.33
Cell differentiation	14	11.57	4	16.67
Immune-associated	14	11.57	2	8.33
ECM	6	4.96	1	4.17