APPLICATIONS / DATABASESSUPPLEMENTAL DATAFACULTYMIRROR SITESCOLLABORATIVE PROJECTSDEPARTMENTS

 


Section III
continued...



Table S5.
Top 100 chi-square probe sets selected for Hyperdiploid >50 in decision tree format

 

U133 probe set

Gene description

Symbol

Location

GenBank Reference

Chi-square value

HD>50
above/below
mean

Fold change

old or new

1

200600_at

Moesin (membrane-organizing extensio spike protein)

MSN

Xq11.2-q12

NM_002444.1

34.0

Above

1.9

old

2

200737_at

Phosphoglycerate kinase 1

PGK1

Xq13

NM_000291.1

34.0

Above

1.8

old

3

200980_s_at

Pyruvate dehydrogenase (lipoamide) alpha 1

PDHA1

Xp22.2-p22.1

NM_000284.1

34.0

Above

1.7

new

4

201136_at

Proteolipid protein 2 (colonic epithelium-enriched)

PLP2

Xp11.23

NM_002668.1

34.0

Above

3.3

old

5

201807_at

Vacuolar protein sorting 26 (yeast)

VPS26

10q21.1

NM_004896.1

34.0

Above

1.7

old

6

202214_s_at

Cullin 4B

CUL4B

Xq23

NM_003588.1

34.0

Above

1.9

new

7

202557_at

Stress 70 protein chaperone, microsome associated, 60 kD

STCH

21q11

AI718418

34.0

Above

2.0

new

8

202593_s_at

membrane interacting protein of RGS16

MIR16

16p12-p11.2

NM_016641.1

34.0

Below

1.6

new

9

203680_at

Protein kinase, cAMP-dependent, regulatory, type II, beta

PRKAR2B

7q22-q31.1

NM_002736.1

34.0

Above

3.3

new

10

204194_at

BTB and CNC homology 1, basic leucine zipper transcription factor 1

BACH1

21q22.11

NM_001186.1

34.0

Above

1.8

new

11

205324_s_at

FtsJ homolog 1 (E. coli)

FTSJ1

Xp11.23

NM_012280.1

34.0

Above

2.1

old

12

208598_s_at

Upstream regulatory element binding protein 1

UREB1

Xp11.22

NM_005703.2

34.0

Above

1.6

old

13

208861_s_at

Alpha thalassemia/mental retardation syndrome X-linked (RAD54 homolog, S. cerevisiae)

ATRX

Xq13.1-q21.1

U72937.2

34.0

Above

1.7

old

14

211342_x_at

trinucleotide repeat containing 11 (THR-associated protein, 230 kDa subunit)

TNRC11

Xq13

BC004354.1

34.0

Above

1.8

new

15

216071_x_at

Trinucleotide repeat containing 11

TNRC11

Xq13

AF132033

34.0

Above

1.8

new

16

218573_at

APR-1 protein/melanoma-associated antigen

MAGEH1

Xp11.22

NM_014061.1

34.0

Above

3.0

new

17

219485_s_at

proteasome (prosome, macropain) 26S subunit, non-ATPase, 10

PSMD10

Xq22.3

NM_002814.1

34.0

Above

2.4

old

18

200655_s_at

Calmodulin 1 (phosphorylase kinase, delta)

CALM1

14q24-q31

NM_006888.1

30.1

Above

1.7

old

19

200738_s_at

Phosphoglycerate kinase 1

PGK1

Xq13

NM_000291.1

30.1

Above

1.8

old

20

200944_s_at

High-mobility group (nonhistone chromosomal) protein 14; member of the HMG 14/17 family

HMG14

21q22.2

NM_004965.1

30.1

Above

1.7

old

21

201092_at

Retinoblastoma binding protein 7

RBBP7

Xp22.31

NM_002893.2

30.1

Above

1.6

new

22

201100_s_at

Ubiquitin specific protease 9

USP9X

Xp11.4

NM_004652.2

30.1

Above

1.7

old

23

201688_s_at

Tumor protein D52

TPD52

8q21

BE974098

30.1

Below

4.1

new

24

201899_s_at

Ubiquitin-conjugating enzyme E2A (RAD6 homolog)

UBE2A

Xq24-q25

NM_003336.1

30.1

Above

1.8

old

25

202325_s_at

ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F6

ATP5J

21q21.1

NM_001685.1

30.1

Above

1.6

old

26

202829_s_at

Synaptobrevin-like 1

SYBL1

Xq28

NM_005638.1

30.1

Above

1.5

old

27

202854_at

Hypoxanthine phosphoribosyltransferase 1 (Lesch-Nyhan syndrome)

HPRT1

Xq26.1

NM_000194.1

30.1

Above

1.4

old

28

206846_s_at

Histone deacetylase 6

HDAC6

Xp11.23

NM_006044.2

30.1

Above

1.5

new

29

209370_s_at

SH3-domain binding protein 2

SH3BP2

4p16.3

AB000462.1

30.1

Above

3.1

new

30

209565_at

zinc finger protein 183 (RING finger, C3HC4 type)

ZNF183

Xq25-q26

BC000832.1

30.1

Above

2.2

new

31

212846_at

KIAA0179 protein.

KIAA0179

21q22.3

D80001.1

30.1

Above

2.0

old

32

217356_s_at

Phosphoglycerate kinase

PGK1

Xq13

S81916.1

30.1

Above

1.8

new

33

218163_at

MCT-1 protein

MCT-1

Xq22-24

NM_014060.1

30.1

Above

1.8

new

34

218386_x_at

Ubiquitin specific protease 16; de-ubiquitinates histone H2A; ubiquitous expression.

USP16

21q22.11

NM_006447.1

30.1

Above

1.7

new

35

218402_s_at

Hermansky-Pudlak syndrome 4

HPS4

 

NM_022081.1

30.1

Below

3.4

new

36

218495_at

Ubiquitously-expressed transcript

UXT

Xp11.23-p11.22

NM_004182.1

30.1

Above

1.5

new

37

218499_at

Mst3 and SOK1-related kinase/STE20-like kinase; contains a Ser/Thr protein kinase domain

MST4

Xq26.1

NM_016542.1

30.1

Above

2.5

new

38

218757_s_at

Similar to yeast Upf3, variant B

UPF3B

Xq25-q26

NM_023010.1

30.1

Above

2.3

new

39

219038_at

Hypothetical protein FLJ11565

FLJ11565

Xq22.2

NM_024657.1

30.1

Above

6.9

new

40

229967_at

Chemokine-like factor super family 2.

CKLFSF2

16q23.1

AA778552

30.1

Above

4.3

new

41

242794_at

EST

 

4q31.1

AI569476

30.1

Above

3.2

new

42

201132_at

Heterogeneous nuclear ribonucleoprotein H2 (H')

HNRPH2

Xq22

NM_019597.1

30.0

Above

2.0

old

43

201312_s_at

SH3 domain binding glutamic acid-rich protein like

SH3BGRL

Xq13.3

NM_003022.1

30.0

Above

1.6

old

44

201894_s_at

Decorin; glycoprotein that binds to type I collagen fibrils & plays a role in matrix assembly.

DCN

12q13.2

NM_001920.1

30.0

Above

1.5

new

45

201923_at

Peroxiredoxin 4

PRDX4

Xp22.13

NM_006406.1

30.0

Above

1.9

old

46

202371_at

Hypothetical protein FLJ21174

FLJ21174

Xq22.1

NM_024863.1

30.0

Above

3.6

old

47

203126_at

Inositol(myo)-1(or 4)-monophosphatase 2

IMPA2

18p11.2

NM_014214.1

30.0

Above

4.1

old

48

204219_s_at

proteasome (prosome, macropain) 26S subunit, ATPase, 1

PSMC1

19p13.3

NM_002802.1

30.0

Above

1.3

old

49

204835_at

polymerase (DNA directed), alpha

POLA

Xp22.1-p21.3

NM_016937.1

30.0

Above

2.0

old

50

212071_s_at

Spectrin, beta, non-erythrocytic 1

SPTBN1

2p21

BE968833

30.0

Below

1.7

new

51

212419_at

EST

 

10q22.3

AL049949.1

30.0

Above

13.1

new

52

212718_at

Hypothetical protein MGC5370

MGC5378

14q32.2

BG110231

30.0

Above

1.5

new

53

213502_x_at

Homo sapiens cDNA FLJ32313 fis, clone PROST2003232, weakly similar to BETA-GLUCURONIDASE PRECURSOR (EC 3.2.1.31)

FLJ32313

22q11.23

X03529

30.0

Below

1.8

old

54

214051_at

Thymosin, beta

TMSNB

Xq21.33-q22.3

BF677486

30.0

Above

3.1

new

55

226039_at

Mannosyl (alpha-1,3)-glycoprotein beta-1,4-N-acetylglucosaminyltransferase

MGAT4A

2q11.2

AW006441

30.0

Above

3.0

new

56

227279_at

hypothetical protein MGC15737

MGC15737

Xq22.1

AA847654

30.0

Above

5.6

new

57

200642_at

Superoxide dismutase 1, soluble

SOD1

21q22.11

NM_000454.1

26.7

Above

2.3

old

58

200799_at

Heat shock 70kD protein 1A

HSPA1A

6p21.3

NM_005345.3

26.7

Above

2.7

old

59

200943_at

High-mobility group (nonhistone chromosomal) protein 14; member of the HMG 14/17 family

HMG14

21q22.2

NM_004965.1

26.7

Above

1.6

old

60

201018_at

Eukaryotic translation initiation factor 1A

EIF1A

Xp22.12

BE542684

26.7

Above

1.8

new

61

201311_s_at

SH3 domain binding glutamic acid-rich protein like

SH3BGRL

Xq13.3

AL515318

26.7

Above

1.6

old

62

201443_s_at

ATPase, H+ transporting, lysosomal interacting protein 2

ATP6IP2

Xq21

AF248966.1

26.7

Above

1.9

old

63

201472_at

Von Hippel-Lindau binding protein 1

VBP1

Xq28

NM_003372.2

26.7

Above

1.7

old

64

201689_s_at

Tumor protein D52

TPD52

8q21

BE974098

26.7

Below

4.3

new

65

202602_s_at

HIV TAT specific factor 1

HTATSF1

Xq26.1-q27.2

NM_014500.1

26.7

Above

1.5

old

66

203041_s_at

Lysosomal-associated membrane protein 2

LAMP2

Xq24

J04183.1

26.7

Above

3.1

old

67

203102_s_at

Mannosyl (alpha-1,6-)-glycoprotein beta-1,2-N-acetylglucosaminyltransferase

MGAT2

14q21

NM_002408.2

26.7

Above

1.6

new

68

203744_at

High-mobility group (nonhistone chromosomal) protein 4

HMG4

Xq28

NM_005342.1

26.7

Above

1.9

new

69

205518_s_at

Cytidine monophosphate-N-acetylneuraminic acid hydroxylase (CMP-N-acetylneuraminate monooxygenase)

CMAH

6p22-p23

NM_003570.1

26.7

Below

2.9

new

70

208683_at

Calpain 2, (m/II) large subunit; calcium-dependent Cys protease.

CAPN2

1q41-q42

M23254.1

26.7

Above

2.2

old

71

209440_at

Phosphoribosyl pyrophosphate synthetase 1; purine biosynthesis.

PRPS1

Xq21-q27

BC001605.1

26.7

Above

1.4

old

72

210786_s_at

Friend leukemia virus integration 1

FLI1

11q24.1-q24.3

M93255.1

26.7

Below

2.5

old

73

212070_at

G protein-coupled receptor 56

GPR56

16q13

AL554008

26.7

Above

2.4

new

74

213334_x_at

Three prime repair exonuclease 2

TREX2

Xq28

BE676218

26.7

Above

1.7

old

75

215117_at

Recombination activating gene 2; V(D)J recombinase.

RAG2

11p13

AW058148

26.7

Below

27.2

old

76

218694_at

ALEX1 protein

ALEX1

Xq21.33-q22.2

NM_016608.1

26.7

Above

2.8

new

77

222741_s_at

hypothetical protein FLJ11101

FLJ11101

6p21.1

AI761426

26.7

Above

1.5

new

78

223082_at

SH3-domain kinase binding protein 1

SH3KBP1

Xp22.1-p21.3

AF230904.1

26.7

Above

2.0

new

79

225105_at

clone MGC:23936 IMAGE:3838595, mRNA, complete cds

 

12q23.3

BF969397

26.7

Above

2.1

new

80

225406_at

Twisted gastrulation

TSG

18p11.3

AA195009

26.7

Above

1.9

new

81

225553_at

Homo sapiens cDNA FLJ12874 fis

 

14q22.2

AL042817

26.7

Above

1.6

new

82

226199_at

Hypothetical protein MGC23937

MGC23937

Xq13.1

AL563795

26.7

Above

2.1

new

83

226875_at

Hypothetical protein FLJ32122

FLJ32122

Xq24

AI742838

26.7

Above

2.3

new

84

232974_at

cDNA FLJ12417 fis

 

Xp22.31

AU148256

26.7

Above

3.1

new

85

46323_at

Ca2+-dependent endoplasmic reticulum nucleoside diphosphatase

SHAPY

17q25.3

AL120741

26.7

Above

1.7

new

86

203694_s_at

DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 16

DDX16

6p21.3

NM_003587.2

26.3

Above

1.3

old

87

200658_s_at

Prohibitin

PHB

17q21

AL560017

26.3

Above

2.0

old

88

201898_s_at

ubiquitin-conjugating enzyme E2A (RAD6 homolog)

UBE2A

Xq24-q25

AI126625

26.3

Above

1.6

old

89

203556_at

KIAA0854 protein

KIAA0854

8q24.13

NM_014943.1

26.3

Below

1.6

old

90

203745_at

Holocytochrome c synthase (cytochrome c heme-lyase)

HCCS

Xp22.3

AI801013

26.3

Above

2.1

new

91

203909_at

Solute carrier family 9 (sodium/hydrogen exchanger), isoform 6

SLC9A6

Xq26.3

NM_006359.1

26.3

Above

1.9

old

92

204446_s_at

Arachidonate 5-lipoxygenase

ALOX5

10q11.2

NM_000698.1

26.3

Above

4.2

old

93

205191_at

Retinitis pigmentosa 2 (X-linked recessive)

RP2

Xp11.4-p11.21

NM_006915.1

26.3

Above

2.1

old

94

206874_s_at

Ste20-related serine/threonine kinase

SLK

10q25.1

AL138761

26.3

Above

1.6

new

95

208073_x_at

Tetratricopeptide repeat domain 3

TTC3

21q22.2

NM_003316.1

26.3

Above

1.9

old

96

209056_s_at

CDC5 cell division cycle 5-like (S. pombe)

CDC5L

6p21

AW268817

26.3