Review Article

CDK/CCN and CDKI Alterations for Cancer Prognosis and Therapeutic Predictivity

Table 3

Functional grouping of genes up- and downregulated after ibuprofen treatment.

Symbol

Access no.

Fold change Description

24 h48 h72 h
400 µM600 µM800 µM400 µM600 µM800 µM400 µM600 µM800 µM

Cell cycle checkpoint
G1/S DNA damage
checkpoint
 CDC25ANM_001789−2,090−2,408Cell division cycle 25 homolog A
(S. pombe)
 CDC25BNM_021873−2,980−2,686−2,415Cell division cycle 25 homolog B
(S. pombe)
 CDC25CNM_001790−2,155−2,306−2,050−3,588Cell division cycle 25 homolog C
(S. pombe)
p53-dependent G1/S DNA Damage checkpoint
 TP53NM_0005462,4472,5033,1503,650 Tumor protein p53
 CDKN1ANM_0784673,0742,789−2,254−2,203 Cyclin-dependent kinase inhibitor 1A (p21, Cip1)
 GADD45ANM_0019244,1942,4932,047Growth arrest and DNA-damage-inducible, alpha
 GADD45BNM_0156752,3522,1912,8642,7922,8994,0165,4795,200 Growth arrest and DNA-damage-inducible, beta
 GADD45GNM_0067052,2082,6612,3794,7965,08114,121
22,532 Growth arrest and DNA-damage-inducible, gamma
 TP53INP1NM_0332852,0333,4755,4943,071 Tumor protein 53 inducible nuclear protein 1
 TP53I3NM_0048812,2142,406 Tumor protein p53 inducible protein 3
 MDM2NM_0023922,5342,8683,0194,1113,1654,369Mdm2 p53 binding protein homolog (mouse)
Cell cycle mitotic
G1/S transition
 CCNE1 NM_001238−2,328−2,652−3,523 Cyclin E1
 CDKN1A NM_0784673,0742,789−2,254−2,203 Cyclin-dependent kinase inhibitor 1A (p21, Cip1)
 CDKN1BNM_0040642,4772,4323,3674,938Cyclin-dependent kinase inhibitor 1B (p27, Kip1)
 CDC2NM_001786−2,540−3,260−2,250−3,940−5,820−2,730−3,420Cell division cell cycle 2
 RB1NM_0003212,8722,473 Retinoblastoma 1
DNA replication / E2F mediated regulation of DNA replication
 E2F1NM_005225−2,283−3,073−2,740−7,552−4,090−3,215E2F transcription factor 1
 CDT1NM_030928−2,571−2,727−2,332−5,931−3,269−2,202Chromatin licensing and DNA replication factor 1
 PCNANM_002592−2,073−2,320−3,481−3,900−5,797−8,575Proliferating cell nuclear antigen
 DHFRNM_000791−2,466−2,157−2,376−4,963−7,712 Dihydrofolate reductase
 TYMSNM_001071−2,088−3,595−4,872−8,869−9,976−11,282 Thymidylate synthase
 POLA2NM_002689−3,763−4,911−6,198DNA polymerase alpha2
 POLA1NM_016937−2,098−2,014DNA polymerase alpha 1
 POLD2NM_006230−2,794−2,403−2,611−3,001−2,114DNA polymerase
delta 2
 POLD3NM_006591−2,244−2,135−2,992DNA polymerase
delta 3
 POLE2NM_002692−2,033−3,289−6,780−6,793−8,488−10,860−11,678DNA polymerase epsilon 2
 POLE4NM_019896−2,154−2,118DNA polymerase epsilon 4
 ORC1LNM_004153−2,914−2,588−2,538−5,605−2,337Origin recognition complex, subunit 1-like (yeast)
 RRM2NM_001034−2,467−2,485−4,266−6,902−4,767−4,299 Ribonucleotide reductase M2 subunit
Regulation of DNA replication
 ORC2LNM_0061902,2882,7272,570Origin recognition complex, subunit 2-like (yeast)
 ORC4LNM_0025523,2162,171Origin recognition complex, subunit 4-like (yeast)
 ORC5LNM_1817472,2092,9022,765Origin recognition complex, subunit 5-like (yeast)
 ORC6LNM_014321−2,348−2,415Origin recognition complex, subunit 6-like (yeast)
 MCM2NM_004526−2,664−3,036−2,943−6,176−4,620−3,494Minichromosome maintenance complex component 2
 MCM3NM_002388−2,105−3,104−3,458−4,038−3,948−4,356Minichromosome maintenance complex component 3
 MCM4NM_005914−2,267−2,266−2,464−3,923−5,040−7,344Minichromosome maintenance complex component 4
 MCM5NM_006739−2,360−3,103−3,392−7,464−4,613−3,677Minichromosome maintenance complex component 5
 MCM6NM_005915−2,320−2,056Minichromosome maintenance complex component 6
 MCM7NM_182776−2,175−2,563−2,617−2,024−2,345Minichromosome maintenance complex component 7
 TK1NM_003258−2,384−3,839−5,606−7,557−24,478−7,567−5,991Thymidine kinase 1, soluble
 FEN1NM_004111−2,008−2,268−2,110−4,470−3,294−2,587Flap structure-specific endonuclease 1
 LIG1NM_000234−2,626−3,753−3,867−8,964−6,958−5,640 DNA Ligase 1
Apoptosis
 CASP3NM_0043462,0972,2392,112Caspase-3
 CASP7NM_0333392,1242,0972,0502,3352,393Caspase-7
 CASP8NM_0333563,6862,4203,056Caspase-8
 CASP9NM_0012292,2212,257Caspase-9
 CASP10NM_0329773,6174,514Caspase-10
 DFFANM_2135662,034DNA fragmentation factor, 45kDa, alpha polypeptide
 DFFBNM_0010042854,0152,1214,583DNA fragmentation factor, 40 kD, beta polypeptide (caspase-activated DNase)