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. 2006 May 26;97(6):510–522. doi: 10.1111/j.1349-7006.2006.00204.x

Table 2.

Summary of the top 20 genes significantly correlated with sensitivity to each drug

Drug Index † Gene name Slope ‡ r § P‐value GenBank no. Product
S‐1 202922_at GCLC  1.69  0.627  <0.001 BF676980 Glutamate‐cysteine ligase, catalytic subunit
207463_x_at PRSS3  4.70  0.631  <0.001 NM_002771 Mesotrypsin preproprotein
202609_at EPS8  3.74  0.617  <0.001 NM_004447 Epidermal growth factor receptor pathway substrate 8
202831_at GPX2  5.75  0.614  <0.001 NM_002083 Gastrointestinal glutathione peroxidase 2
218854_at SART2  −3.47  −0.602  <0.001 NM_013352 Squamous cell carcinoma antigen recognized by T cells 2
203476_at TPBG  −3.78  −0.593  0.001 NM_006670 5T4 oncofetal trophoblast glycoprotein
217794_at DKFZp564J157  1.94  0.593  0.001 NM_018457 DKFZp564J157 protein isoform 1
201425_at ALDH2  3.64  0.586  0.001 NM_000690 Mitochondrial aldehyde dehydrogenase 2 precursor
208453_s_at XPNPEP1  1.57  0.581  0.001 NM_006523 X‐prolyl aminopeptidase (aminopeptidase P) 1, soluble
205402_x_at PRSS2  4.48  0.557  0.001 NM_002770 Protease, serine, 2 preproprotein
219115_s_at IL20RA  2.35  0.555  0.001 NM_014432 Interleukin 20 receptor, alpha
221016_s_at TCF7L1  −2.08  −0.557  0.001 NM_031283 HMG‐box transcription factor TCF‐3
202794_at INPP1  1.83  0.552  0.002 NM_002194 Inositol polyphosphate‐1‐phosphatase
203832_at SNRPF  1.64  0.551  0.002 NM_003095 Small nuclear ribonucleoprotein polypeptide F
201829_at NET1  1.71  0.545  0.002 AW263232 Neuroepithelial cell transforming gene 1
204608_at ASL  1.86  0.546  0.002 NM_000048 Argininosuccinate lyase
220189_s_at MGAT4B  1.51  0.546  0.002 NM_014275 Mannosyl‐glycoprotein β‐1,4‐N‐acetylglucosaminyltransferase, isoenzyme B isoform 1
209605_at TST  5.09  0.544  0.002 D87292 Rhodanese
211184_s_at aie‐75  3.17  0.541  0.002 AB006955 AIE‐75
202674_s_at LMO7  1.97  0.540  0.002 NM_005358 LIM domain only 7
UFT 205395_s_at MRE11A  −3.68  −0.749  <0.001 NM_005590 Meiotic recombination 11 homolog A isoform 2
201312_s_at SH3BGRL  −5.76  −0.639  <0.001 NM_003022 SH3 domain binding glutamic acid‐rich protein like
203752_s_at JUND  1.50  0.633  <0.001 NM_005354 Jun‐D proto‐oncogene
204333_s_at AGA  −1.91  −0.632  <0.001 NM_000027 Aspartylglucosaminidase precursor
217788_s_at GALNT2  −2.21  −0.616  <0.001 NM_004481 Polypeptide N‐acetylgalactosaminyltransferase 2
218854_at SART2  −4.22  −0.620  <0.001 NM_013352 Squamous cell carcinoma antigen recognized by T cells 2
209526_s_at HRP‐3  −4.47  −0.581  0.001 AB029156 HRP‐3
214600_at TEAD1  −2.17  −0.580  0.001 AW771935 TEA domain family member 1
205187_at Smad5  −2.34  −0.567  0.001 AF010601 SMAD5
212983_at HRAS  −2.05  −0.564  0.001 NM_005343 v‐Ha‐ras Harvey rat sarcoma viral oncogene homolog isofrom 1
217759_at TRIM44  −1.89  −0.554  0.002 NM_017583 DIPB protein
201481_s_at PYGB  6.03  0.552  0.002 NM_002862 Brain glycogen phosphorylase
203874_s_at SMARCA1  −3.09  −0.540  0.002 NM_003069 SWI/SNF‐related matrix‐associated actin‐dependent regulator of chromatin a1 isoform a
201177_s_at UBA2  −1.68  −0.538  0.002 NM_005499 SUMO‐1 activating enzyme subunit 2
201540_at FHL1  −4.53  −0.530  0.003 NM_001449 Four and a half LIM domains 1
202602_s_at HTATSF1  −1.67  −0.530  0.003 NM_014500 HIV TAT specific factor 1
200821_at LAMP2  −1.78  −0.524  0.003 NM_013995 Lysosomal‐associated membrane protein 2 precursor
214257_s_at SEC22L1  −1.93  −0.524  0.003 AA890010 Hypothetical protein
202082_s_at SEC14L1  −1.74  −0.518  0.003 AV748469 SEC14 (S. cerevisiae)‐like 1
203953_s_at CLDN3  8.32  0.517  0.003 BE791251 Claudin 3
5′‐DFUR 201481_s_at PYGB  7.46  0.686  <0.001 NM_002862 Brain glycogen phosphorylase
203586_s_at ARF4L  −1.97  −0.669  <0.001 NM_001661 ADP‐ribosylation factor 4‐like
205395_s_at MRE11A  −3.30  −0.674  <0.001 NM_005590 Meiotic recombination 11 homolog A isoform 2
202620_s_at PLOD2  −5.49  −0.644  <0.001 NM_000935 Procollagen‐lysine, 2‐oxoglutarate 5‐dioxygenase 2 isoform b
214600_at TEAD1  −2.33  −0.626  <0.001 AW771935 TEA domain family member 1
218854_at SART2  −4.30  −0.634  <0.001 NM_013352 Squamous cell carcinoma antigen recognized by T cells 2
222065_s_at FLII  −1.73  −0.632  <0.001 AI830227 Flightless I homolog (Drosophila)
204201_s_at PTPN13  −3.53  −0.610  <0.001 NM_006264 Protein tyrosine phosphatase, non‐receptor type 13 isoform 2
204646_at DPYD  −4.86  −0.603  <0.001 NM_000110 Dihydropyrimidine dehydrogenase
219255_x_at IL17RB  4.16  0.603  <0.001 NM_018725 Interleukin 17B receptor isoform 1 precursor
210827_s_at ESE‐1  3.79  0.599  0.001 U73844 ESE‐1a
200989_at HIF1A  −1.61  −0.592  0.001 NM_001530 Hypoxia‐inducible factor 1, α subunit isoform 1
220147_s_at C12orf14  1.69  0.592  0.001 NM_021238 Chromosome 12 open reading frame 14
201528_at RPA1  −1.89  −0.580  0.001 BG398414 Replication protein A1, 70 kDa
201540_at FHL1  −4.94  −0.578  0.001 NM_001449 Four and a half LIM domains 1
212983_at HRAS  −2.09  −0.577  0.001 NM_005343 v‐Ha‐ras Harvey rat sarcoma viral oncogene homolog isofrom 1
219553_at NME7  −1.94  −0.580  0.001 NM_013330 Nucleoside‐diphosphate kinase 7 isoform a
213330_s_at STIP1  −1.64  −0.576  0.001 BE886580 Stress‐induced‐phosphoprotein 1
201289_at CYR61  −5.85  −0.572  0.001 NM_001554 Cysteine‐rich, angiogenic inducer, 61
203953_s_at CLDN3  9.18  0.572  0.001 BE791251 Claudin 3
Capecitabine 201481_s_at PYGB  7.79  0.742  <0.001 NM_002862 Brain glycogen phosphorylase
218059_at LOC51123  1.71  0.660  <0.001 NM_016096 HSPC038 protein
218854_at SART2  −4.56  −0.696  <0.001 NM_013352 Squamous cell carcinoma antigen recognized by T cells 2
201528_at RPA1  −2.01  −0.641  <0.001 BG398414 Replication protein A1, 70 kDa
200989_at HIF1A  −1.68  −0.637  <0.001 NM_001530 Hypoxia‐inducible factor 1, α subunit isoform 1
203586_s_at ARF4L  −1.80  −0.632  <0.001 NM_001661 ADP‐ribosylation factor 4‐like
204073_s_at C11orf9  3.24  0.618  <0.001 NM_013279 Chromosome 11 open reading frame 9
205395_s_at MRE11A  −2.93  −0.620  <0.001 NM_005590 Meiotic recombination 11 homolog A isoform 2
204201_s_at PTPN13  −3.38  −0.605  <0.001 NM_006264 Protein tyrosine phosphatase, non‐receptor type 13 isoform 2
209620_s_at ABCB7  −2.09  −0.605  <0.001 AB005289 ATP‐binding cassette, subfamily B (MDR/TAP), member 7
222065_s_at FLII  −1.60  −0.606  <0.001 AI830227 Flightless I homolog (Drosophila)
213330_s_at STIP1  −1.62  −0.590  0.001 BE886580 Stress‐induced‐phosphoprotein 1 (Hsp70/Hsp90‐organizing protein)
214600_at TEAD1  −2.12  −0.590  0.001 AW771935 TEA domain family member 1 (SV40 transcriptional enhancer factor)
217848_s_at PP  1.96  0.592  0.001 NM_021129 Inorganic pyrophosphatase
32837_at AGPAT2  1.96  0.589  0.001 U56418 Lysophosphatidic acid acyltransferase‐beta
204351_at S100P  8.87  0.581  0.001 NM_005980 S100 calcium binding protein P
205403_at IL1R2  6.30  0.579  0.001 NM_004633 Interleukin 1 receptor, type II precursor
209160_at c‐hluPGFS  7.40  0.578  0.001 AB018580 HluPGFS
212983_at HRAS  −2.02  −0.578  0.001 NM_005343 v‐Ha‐ras Harvey rat sarcoma viral oncogene homolog isofrom 1
36742_at ZNFB7  2.67  0.577  0.001 U34249 Zinc finger protein
CDDP 208012_x_at SP110  −2.77  −0.662  <0.001 NM_004509 SP110 nuclear body protein isoform a
201278_at DAB2  −2.45  −0.636  <0.001 N21202 Disabled homolog 2, mitogen‐responsive phosphoprotein
218070_s_at GMPPA  −1.66  −0.593  0.001 NM_013335 GDP‐mannose pyrophosphorylase A
201661_s_at ACSL3  −1.51  −0.592  0.001 NM_004457 Acyl‐CoA synthetase long‐chain family member 3
203423_at RBP1  4.07  0.584  0.001 NM_002899 Retinol binding protein 1, cellular
202659_at PSMB10  −3.07  −0.581  0.001 NM_002801 Proteasome beta 10 subunit proprotein
211429_s_at MYCPBP  −7.04  −0.577  0.001 AF119873 PRO2275
217844_at CTDSP1  −1.74  −0.575  0.001 NM_021198 CTD (carboxy‐terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1
201482_at QSCN6  −3.49  −0.569  0.001 NM_002826 quiescin Q6 isoform a
202100_at RALB  −2.02  −0.561  0.001 BG169673 v‐ral simian leukemia viral oncogene homolog B
203228_at PAFAH1B3  1.92  0.558  0.001 NM_002573 Platelet‐activating factor acetylhydrolase, isoform Ib, gamma subunit 29 kDa
204306_s_at CD151  −1.94  −0.556  0.001 NM_004357 CD151 antigen
209761_s_at SP110  −1.91  −0.555  0.001 AA969194 SP110 nuclear body protein
203964_at NMI  −2.38  −0.544  0.002 NM_004688 N‐myc and STAT interactor
1729_at TRADD  −1.68  −0.533  0.002 NM_003789 Tumor necrosis factor receptor type 1 associated protein
202733_at P4HA2  −1.58  −0.533  0.002 NM_004199 Procollagen‐proline, 2‐oxoglutarate 4‐dioxygenase,alpha polypeptide II
204001_at SNAPC3  1.52  0.531  0.003 NM_003084 Small nuclear RNA activating complex, polypeptide 3,50 kDa
221523_s_at RAGD  2.92  0.519  0.003 AL138717 Ras‐related GTP binding D
201887_at IL13RA1  −2.13  −0.515  0.004 NM_001560 Interleukin 13 receptor, alpha 1 precursor
202863_at SP100  −2.50  −0.514  0.004 NM_003113 Nuclear antigen Sp100
CPT11 202870_s_at CDC20  2.08  0.694  <0.001 NM_001255 Cell division cycle 20
203832_at SNRPF  2.26  0.657  <0.001 NM_003095 Small nuclear ribonucleoprotein polypeptide F
205085_at ORC1L  1.64  0.751  <0.001 NM_004153 Origin recognition complex, subunit 1
205412_at ACAT1  3.01  0.730  <0.001 NM_000019 Acetyl‐coenzyme A acetyltransferase 1 precursor
206653_at POLR3G  2.60  0.664  <0.001 BF062139 Polymerase (RNA) III (DNA directed) polypeptide G (32 kDa)
208967_s_at adk2  1.60  0.723  <0.001 U39945 Adenylate kinase 2
210567_s_at SKP2  2.13  0.661  <0.001 BC001441 S‐phase kinase‐associated protein 2, isoform 2
212136_at ATP2B4  −3.26  −0.744  <0.001 AW517686 ATPase, Ca++ transporting, plasma membrane 4
214177_s_at PBXIP1  −1.68  −0.714  <0.001 AI935162 Pre‐B‐cell leukemia transcription factor interacting protein 1
215127_s_at RBMS1  −2.43  −0.663  <0.001 AL517946 RNA binding motif, single stranded interacting protein 1
217988_at CCNB1IP1  2.50  0.680  <0.001 NM_021178 Cyclin B1 interacting protein 1 isoform a
220892_s_at PSAT1  3.14  0.697  <0.001 NM_021154 Phosphoserine aminotransferase isoform 2
204127_at RFC3  1.62  0.640  <0.001 BC000149 Replication factor C 3, isoform 1
205909_at POLE2  1.64  0.640  <0.001 NM_002692 DNA polymerase epsilon subunit 2
200078_s_at ATP6V0B  1.86  0.634  <0.001 BC005876 ATPase, H+ transporting, lysosomal 21 kDa, V0 subunit c″
202705_at CCNB2  1.55  0.622  <0.001 NM_004701 Cyclin B2
204244_s_at ASK  1.80  0.624  <0.001 NM_006716 Activator of S phase kinase
204559_s_at LSM7  1.91  0.632  <0.001 NM_016199 U6 snRNA‐associated Sm‐like protein LSm7
206752_s_at DFFB  2.58  0.631  <0.001 NM_004402 DNA fragmentation factor, 40 kDa, beta polypeptide isoform 1
216321_s_at NR3C1  −6.46  −0.624  <0.001 X03348 β‐Glucocorticoid receptor
Paclitaxel 201272_at AKR1B1  3.88  0.581  0.001 NM_001628 Aldo‐keto reductase family 1, member B1
205659_at HDAC9  3.14  0.577  0.001 NM_014707 Histone deacetylase 9 isoform 3
204867_at GCHFR  −2.41  −0.566  0.001 NM_005258 GTP cyclohydrolase I feedback regulatory protein
206247_at MICB  2.72  0.532  0.003 NM_005931 MHC class I polypeptide‐related sequence B
204981_at SLC22A18  −2.99  −0.530  0.003 NM_002555 Tumor suppressing subtransferable candidate 5
201012_at ANXA1  3.48  0.516  0.004 NM_000700 Annexin I
201564_s_at FSCN1  3.95  0.517  0.004 NM_003088 Fascin 1
207717_s_at PKP2  −2.32  −0.515  0.004 NM_004572 Plakophilin 2 isoform 2b
210264_at GPR35  −1.98  −0.515  0.004 AF089087 G protein‐coupled receptor
202722_s_at GFPT1  −1.75  −0.514  0.004 NM_002056 Glucosamine‐fructose‐6‐phosphate aminotransferase
205443_at SNAPC1  1.79  0.512  0.004 NM_003082 Small nuclear RNA activating complex, polypeptide 1, 43 kDa
201746_at TP53  −1.67  −0.506  0.004 NM_000546 Tumor protein p53
204527_at MYO5A  1.97  0.504  0.005 NM_000259 Myosin VA (heavy polypeptide 12, myoxin)
201540_at FHL1  3.43  0.503  0.005 NM_001449 Four and a half LIM domains 1
203423_at RBP1  2.66  0.498  0.005 NM_002899 Retinol binding protein 1, cellular
204404_at SLC12A2  −2.63  −0.497  0.005 NM_001046 Solute carrier family 12, member 2
213757_at EIF5A  2.92  0.492  0.006 AA393940 Eukaryotic translation initiation factor 5 A
209016_s_at KRT7  4.56  0.488  0.006 BC002700 Keratin 7
203953_s_at CLDN3  −6.15  −0.480  0.007 BE791251 Claudin 3
35148_at TJP3  −2.87  −0.478  0.008 AC005954 Tight junction protein 3 (zona occludens 3)
†

Index: Affimetrix probe set ID, a unique identifier that can be used for GenBank accession numbers and consensus gene sequences.

‡

‡ Slope: slope of the regression line between gene expression level and drug sensitivity.

§

r: Pearson's correlation coefficient. CDDP, cisplatin; CPT‐11, irinotecan hydrochloride; 5′‐DFUR, 5′‐deoxy‐5‐fluorouridine; S‐1, 1 M tegafur−0.4 M 5‐chloro‐2,4‐dihydroxypyridine−1 M potassium oxonate; UFT, 1 M tegafur−4 M uracil.