Colorectal Cancer
Copyright ©2006 Baishideng Publishing Group Co.
World J Gastroenterol. Feb 21, 2006; 12(7): 1025-1032
Published online Feb 21, 2006. doi: 10.3748/wjg.v12.i7.1025
Table 1 QRT-PCR parameters
GenePrimerSequenceLength of primer (bp)Length of product (bp)Location of product
HSE1
Forward prime5’-TGGCAGGACAAGCGTTTAGA-3’206643–108
Reverse prime5’-CAGCACTCCTTTCAACCAATACTC-324
TaqMan probe5’>FAM AGTTTCTTCCACTCTTTG Quencher < 3’1864–81
SOX9
Forward prime5’-AGCGACGTCATCTCCAACATC-3’21491235–1
Reverse prime5’-GTTGGGCGGCAGGTACTG-3’18252
TaqMan5’>FAM CCTTCGATGTCAACGAGT Quencher < 3’18
CaM3098–3
Forward prime5’-GTTGAGCGAGGCAAATGGAT-3’2062161
Reverse prime5’-TCCTTGGCAACAGTGCATCA-3’20
TaqMan5’>FAM TCGATATTTCAGATGGGC Quencher <3 ’18
β-Actin1058–1
nForward prime5’-CTGGCACCCAGCACAATG-3’1893075
Reverse prime5’-GGACAGCGAGGCCAGGAT-3’18
TaqMan5’>FAM ATCATTGCTCCTCCTGAG Quencher < 3’18
Table 2 Differently expressed genes in subtracted cDNA populations
Name of geneAccessionnumbercDNAcDNA array ratio
Group 1Group 2
Proto-oncogene and tumor suppressor genesITGA6: integrin, alpha 6ck570352C602.277
Ion channelsATP1B1: ATPase, Na+/K+ transporting, beta 1ck570329C80.352
proteinspolypeptideck570304,a503.265
CALM1: calmodulin 1 (phosphorylase kinase, delta)ck570314b191.8560.344
Cell cycle proteinsPTMA: prothymosin, alphack570346C472.090
BTG1: B-cell translocation gene 1, anti-proliferativeck570300a212.058
DKFZp451J0118: taxilin
CAPZA1: capping protein (actin filament) muscleck570339c320.472
Z-line, alpha 1ck570343c410.493
TBDN100: transcriptional coactivator tubedown-100ck570351c582.211
Cell frame and movementK-ALPHA-1: tubulin, alpha, ubiquitousck570353C612.281
TUBB2: tubulin, beta, 2ck570366C913.21
CAPZA1: capping protein (actin filament) muscle Z-line, alpha 1ck570343C410.493
Apoptosis related proteins SignalK-ALPHA-1: tubulin, alpha, ubiquitousck570339C320.472
SRPRB: signal recognition particle receptor, B subunitck570312b121.5400.425
transmitting related proteinsPERQ1: PERQ amino acid rich, with GYF domain 1ck570299a150.486
Synthesis and translationZNF403: zinc finger protein 403ck570360C853.1973.197
related proteinsSOX9: SRY (sex determining region Y)-box 9ck570305,b20.4262.344
(campomelic dysplasia, autosomal sex-reversal)ck570306,b30.4891.593
ck570361c863.391
SET: SET translocation (myeloid leukemia-associated)ck570344c432.447
Bit1: Bcl-2 inhibitor of transcription
EIF3S6: eukaryotic translation initiation factor 3, subunitck570355c732.666
6 48 KDck570311b110.6602.091
EIF4E: eukaryotic translation initiation factor 4E
NCL: nucleolinck570336c160.392
ck570367c924.67
MetabolismRPL7: ribosomal protein L7ck570290a30.359
related proteinsRPS24: ribosomal protein S24ck570297a130.457
RPS25: ribosomal protein S25ck570349c552.202
COX7C: cytochrome c oxidase subunit VIIcck570315b201.8600.580
FABP1: fatty acid binding protein 1, liverck570324b392.8070.547
SAT: spermidine/spermine N1-acetyltransferaseck570335c130.375
SCD: stearoyl-CoA desaturase (delta-9-desaturase)ck570357c813.098
PAFAH1B2: platelet-activating factor acetylhydrolase, isoform Ib, beta subunit 30 KD protein 1ck570292a70.421
Immunity and stimulation related proteinsHSPE1: heat shock 10 protein 1 (chaperonin 10)ck570307,b60.5623.191
ck570308,b70.5672.686
ck570310,b90.6492.532
ck570347c522.132
HSPD1: heat shock 60 KD protein 1 (chaperonin)ck570356c772.786
IGHG1: immunoglobulin heavy constant gamma 1ck570363c904.667
(G1m marker)ck570321b5-10.4932.830
IFITM3: interferon induced transmembrane protein 3 (1–8 U)ck570309b80.6343.021
PSMA7: proteasome (prosome, macropain) subunit, alpha type, 7
Cell receptorPIGR: polymeric immunoglobulin receptorck570301,a282.309
ck570303,a392.552
ck570313,b131.5540.330
ck570316,b211.8690.505
ck570318,b241.9820.394
ck570319b402.9420.662
OthersC6orf62: chromosome 6 open reading frame 62ck570289a20.236
IRA1: likely ortholog of mouse IRA1 proteinck570291a40.402
MRNA: cDNA DKFZp686P07216 (from clone DKFZp686P07216)ck570296a120.450
DACH1: dachshund homolog 1 (Drosophila)ck570298a140.482
TXNIP: thioredoxin interacting proteinck570317b231.9590.297
LOC376745: AG1ck570328c50.336
Transcribed sequence with strong similarity to protein prf:0512543A (H. sapiens) 0512543A oxidase II, cytochromeck570333c120.373
C14orf112: chromosome 14 open reading frame 112ck570337c190.414
Transcribed sequence with moderate similarity tock570348c532.152
protein sp:P18124 (H. sapiens) RL7_HUMAN 60Sck570354c712.648
ribosomal protein L7ck570358c823.127
F LJ32421: hypothetical protein FLJ32421ck570364,c502.104
C20orf45: chromosome 20 open reading frame 45ck570322,b382.6650.368
ck570327,b442.9420.590
CDNA clone MGC:62026 IMAGE:6450688, complete cdsck570330,c100.368