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Supplementary Information

Gene Expression Profiling of Pediatric Acute Myelogenous Leukemia

Section III: Genetic Subtype Discriminating Genes

Table S12. Top 100 probe sets selected by SAM for CBF leukemias (whole dataset)

  U133 probe set Gene description Symbol Location GenBank reference UniGene reference SAM d-score CBF Above/ Below mean Fold change
1 206187_at prostaglandin I2 (prostacyclin) receptor (IP) PTGIR Chr:19q13.3 NM_000960 Hs.458324 11.2 Above 4.3
2 205529_s_at core-binding factor, runt domain, alpha subunit 2; translocated to, 1; cyclin D-related CBFA2T1 Chr:8q22 NM_004349 Hs.90858 10.3 Above 13.7
3 205528_s_at core-binding factor, runt domain, alpha subunit 2; translocated to, 1; cyclin D-related CBFA2T1 Chr:8q22 X79990 Hs.90858 9.9 Above 19.6
4 206622_at thyrotropin-releasing hormone TRH Chr:3q13.3-q21 NM_007117 Hs.182231 9.7 Above 14.4
5 204495_s_at DKFZP434H132 protein DKFZP434H132 Chr:15q23 NM_015492 Hs.17936 -9.6 Below 2.3
6 204494_s_at DKFZP434H132 protein DKFZP434H132 Chr:15q23 AW516789 Hs.17936 -9.2 Below 2.2
7 206090_s_at disrupted in schizophrenia 1 DISC1 Chr:1q42.1 NM_018662 Hs.26985 8.7 Above 1.7
8 206940_s_at POU domain, class 4, transcription factor 1 POU4F1 Chr:13q21.1-q22 NM_006237 Hs.458303 8.7 Above 16.6
9 34210_at CDW52 antigen (CAMPATH-1 antigen) CDW52 Chr:1p36 N90866 Hs.276770 8.7 Above 3.5
10 211341_at POU domain, class 4, transcription factor 1 POU4F1 Chr:13q21.1-q22 L20433 Hs.458303 8.5 Above 31.1
11 218825_at EGF-like-domain, multiple 7 EGFL7 Chr:9q34.3 NM_016215 Hs.91481 8.4 Above 3.0
12 204661_at CDW52 antigen (CAMPATH-1 antigen) CDW52 Chr:1p36 NM_001803 Hs.276770 8.3 Above 3.4
13 208891_at dual specificity phosphatase 6 DUSP6 Chr:12q22-q23 BC003143 Hs.298654 8.2 Above 2.5
14 208893_s_at dual specificity phosphatase 6 DUSP6 Chr:12q22-q23 BC005047 Hs.298654 8.2 Above 2.8
15 218858_at hypothetical protein FLJ12428 FLJ12428 Chr:8q24.12 NM_022783 Hs.87729 8.1 Above 2.4
16 204811_s_at calcium channel, voltage-dependent, alpha 2/delta subunit 2 CACNA2D2 Chr:3p21.3 NM_006030 Hs.389415 7.9 Above 5.3
17 204020_at purine-rich element binding protein A PURA Chr:5q31 BF739943 Hs.29117 -7.8 Below 2.5
18 218899_s_at brain and acute leukemia, cytoplasmic BAALC Chr:8q22.3 NM_024812 Hs.169395 7.6 Above 3.8
19 211685_s_at neurocalcin delta NCALD Chr:8q22-q23 AF251061 Hs.90063 7.6 Above 2.3
20 216831_s_at core-binding factor, runt domain, alpha subunit 2; translocated to, 1; cyclin D-related CBFA2T1 Chr:8q22 AF018283 Hs.90858 7.6 Above 21.4
21 208892_s_at dual specificity phosphatase 6 DUSP6 Chr:12q22-q23 BC003143 Hs.298654 7.5 Above 2.2
22 212496_s_at KIAA0876 protein KIAA0876 Chr:19p13.3 BE256900 Hs.301011 7.5 Above 2.2
23 220560_at chromosome 11 open reading frame 21 C11orf21 Chr:11p15.5 NM_014144 Hs.272100 -7.4 Below 3.0
24 221760_at mannosidase, alpha, class 1A, member 1 MAN1A1 Chr:6q22 BG287153 Hs.255149 7.4 Above 3.7
25 209543_s_at CD34 antigen CD34 Chr:1q32 M81104 Hs.374990 7.4 Above 3.2
26 212097_at caveolin 1, caveolae protein, 22kDa CAV1 Chr:7q31.1 AU147399 Hs.74034 7.2 Above 9.1
27 206855_s_at hyaluronoglucosaminidase 2 HYAL2 Chr:3p21.3 NM_003773 Hs.76873 7.1 Above 1.6
28 210010_s_at solute carrier family 25 (mitochondrial carrier; citrate transporter), member 1 SLC25A1 Chr:22q11.21 U25147 Hs.111024 7.1 Above 1.9
29 219686_at gene for serine/threonine protein kinase HSA250839 Chr:4p16.2 NM_018401 Hs.58241 7.0 Above 4.2
30 205173_x_at CD58 antigen, (lymphocyte function-associated antigen 3) CD58 Chr:1p13 NM_001779 Hs.75626 7.0 Above 2.3
31 208978_at cysteine-rich protein 2 CRIP2 Chr:14q32.3 U36190 Hs.70327 7.0 Above 4.2
32 219478_at WAP four-disulfide core domain 1 WFDC1 Chr:16q24.3 NM_021197 Hs.36688 6.8 Above 2.8
33 216356_x_at BAI1-associated protein 3 BAIAP3 Chr:16p13.3 AB018277 Hs.458427 6.8 Above 2.8
34 212136_at ATPase, Ca++ transporting, plasma membrane 4 ATP2B4 Chr:1q25-q32 AW517686 Hs.343522 -6.8 Below 1.7
35 208116_s_at mannosidase, alpha, class 1A, member 1 MAN1A1 Chr:6q22 NM_005907 Hs.255149 6.8 Above 3.0
36 336_at --- --- --- D38081 --- 6.7 Above 1.9
37 203865_s_at adenosine deaminase, RNA-specific, B1 (RED1 homolog rat) ADARB1 Chr:21q22.3 NM_015833 Hs.148822 -6.7 Below 5.3
38 204021_s_at purine-rich element binding protein A PURA Chr:5q31 NM_005859 Hs.29117 -6.7 Below 2.9
39 219271_at UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase T10 GalNac-T10 Chr:2p23.2 NM_024572 Hs.15830 6.7 Above 2.7
40 200989_at hypoxia-inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) HIF1A Chr:14q21-q24 NM_001530 Hs.412416 6.6 Above 1.7
41 201968_s_at phosphoglucomutase 1 PGM1 Chr:1p31 NM_002633 Hs.1869 -6.6 Below 1.8
42 204285_s_at phorbol-12-myristate-13-acetate-induced protein 1 PMAIP1 Chr:18q21.32 AI857639 Hs.96 6.6 Above 2.3
43 211744_s_at CD58 antigen, (lymphocyte function-associated antigen 3) CD58 Chr:1p13 BC005930 Hs.75626 6.6 Above 2.4
44 221581_s_at Williams-Beuren syndrome chromosome region 5 WBSCR5 Chr:7q11.23 AF257135 Hs.56607 -6.5 Below 3.5
45 201137_s_at major histocompatibility complex, class II, DP beta 1 HLA-DPB1 Chr:6p21.3 NM_002121 Hs.368409 6.5 Above 2.3
46 206631_at prostaglandin E receptor 2 (subtype EP2), 53kDa PTGER2 Chr:14q22 NM_000956 Hs.2090 6.4 Above 1.9
47 204794_at dual specificity phosphatase 2 DUSP2 Chr:2q11 NM_004418 Hs.1183 6.4 Above 2.8
48 221865_at DKFZp547P234 protein DKFZp547P234 Chr:9q33.1 BF969986 Hs.170226 6.4 Above 1.7
49 204086_at preferentially expressed antigen in melanoma PRAME Chr:22q11.22 NM_006115 Hs.30743 6.3 Above 3.3
50 212135_s_at ATPase, Ca++ transporting, plasma membrane 4 ATP2B4 Chr:1q25-q32 AW517686 Hs.343522 -6.3 Below 1.8
51 213194_at hypothetical protein FLJ10539 FLJ10539 Chr:3p14.2 BF059159 Hs.301198 6.3 Above 7.8
52 218352_at regulator of chromosome condensation (RCC1) and BTB (POZ) domain containing protein 1 RCBTB1 Chr:13q14 NM_018191 Hs.58452 6.3 Above 2.1
53 200665_s_at secreted protein, acidic, cysteine-rich (osteonectin) SPARC Chr:5q31.3-q32 NM_003118 Hs.111779 6.3 Above 2.8
54 206726_at prostaglandin D2 synthase, hematopoietic PGDS Chr:4q22.3 NM_014485 Hs.128433 6.3 Above 3.5
55 207375_s_at interleukin 15 receptor, alpha IL15RA Chr:10p15-p14 NM_002189 Hs.12503 6.2 Above 2.1
56 204990_s_at integrin, beta 4 ITGB4 Chr:17q11-qter NM_000213 Hs.85266 6.2 Above 3.0
57 212099_at ras homolog gene family, member B ARHB Chr:2pter-p12 AI263909 Hs.406064 6.2 Above 2.6
58 212895_s_at active BCR-related gene ABR Chr:17p13.3 AL527773 Hs.434004 -6.2 Below 2.1
59 211991_s_at major histocompatibility complex, class II, DP alpha 1 HLA-DPA1 Chr:6p21.3 M27487 Hs.914 6.2 Above 2.2
60 210744_s_at interleukin 5 receptor, alpha IL5RA Chr:3p26-p24 M75914 Hs.68876 6.2 Above 6.8
61 205101_at MHC class II transactivator MHC2TA Chr:16p13 NM_000246 Hs.126714 6.1 Above 2.4
62 203773_x_at biliverdin reductase A BLVRA Chr:7p14-cen NM_000712 Hs.435726 6.1 Above 1.8
63 216942_s_at CD58 antigen, (lymphocyte function-associated antigen 3) CD58 Chr:1p13 D28586 Hs.75626 6.1 Above 2.4
64 201497_x_at myosin, heavy polypeptide 11, smooth muscle MYH11 Chr:16p13.13-p13.12 NM_022844 Hs.78344 6.1 Above 4.9
65 218742_at protein related to Narf HPRN Chr:16p13.3 NM_022493 Hs.22158 6.1 Above 2.1
66 211031_s_at cytoplasmic linker 2 CYLN2 Chr:7q11.23 BC006259 Hs.104717 -6.1 Below 2.6
67 201700_at cyclin D3 CCND3 Chr:6p21 NM_001760 Hs.83173 -6.0 Below 1.9
68 203741_s_at adenylate cyclase 7 ADCY7 Chr:16q12-q13 NM_001114 Hs.172199 -6.0 Below 2.3
69 203932_at major histocompatibility complex, class II, DM beta HLA-DMB Chr:6p21.3 NM_002118 Hs.1162 6.0 Above 2.1
70 218205_s_at MAP kinase-interacting serine/threonine kinase 2 MKNK2 Chr:19p13.3 NM_017572 Hs.512094 6.0 Above 1.5
71 217989_at retinal short-chain dehydrogenase/reductase 2 RETSDR2 Chr:4q22.1 NM_016245 Hs.282984 6.0 Above 1.4
72 211729_x_at biliverdin reductase A BLVRA Chr:7p14-cen BC005902 Hs.435726 6.0 Above 1.7
73 202664_at Wiskott-Aldrich syndrome protein interacting protein WASPIP Chr:2q31.2 AW058622 Hs.401414 6.0 Above 1.4
74 207134_x_at tryptase beta 2 TPSB2 Chr:16p13.3 NM_024164 Hs.405479 6.0 Above 3.8
75 217795_s_at hypothetical protein MGC3222 MGC3222 Chr:3p25.1 W74580 Hs.130330 6.0 Above 1.3
76 205760_s_at 8-oxoguanine DNA glycosylase OGG1 Chr:3p26.2 NM_016821 Hs.380271 -5.9 Below 2.3
77 219890_at C-type (calcium dependent, carbohydrate-recognition domain) lectin, superfamily member 5 CLECSF5 Chr:7q33 NM_013252 Hs.126355 5.9 Above 2.5
78 212495_at KIAA0876 protein KIAA0876 Chr:19p13.3 BE256900 Hs.301011 5.9 Above 1.8
79 208178_x_at triple functional domain (PTPRF interacting) TRIO Chr:5p15.1-p14 NM_007118 Hs.367689 5.9 Above 2.3
80 210613_s_at synaptogyrin 1 SYNGR1 Chr:22q13.1 BC000731 Hs.414343 5.9 Above 1.7
81 33304_at interferon stimulated gene 20kDa ISG20 Chr:15q26 U88964 Hs.105434 5.9 Above 2.0
82 218613_at hypothetical protein DKFZp761K1423 DKFZp761K1423 Chr:8p22 NM_018422 Hs.236438 5.9 Above 2.7
83 221012_s_at tripartite motif-containing 8 TRIM8 Chr:10q24.3 NM_030912 Hs.54580 -5.8 Below 1.8
84 203355_s_at ADP-ribosylation factor guanine nucleotide factor 6 EFA6R Chr:8pter-p23.3 NM_015310 Hs.408177 5.8 Above 3.5
85 205683_x_at tryptase beta 2 TPSB2 Chr:16p13.3 NM_003294 Hs.405479 5.8 Above 3.5
86 221218_s_at thiamin pyrophosphokinase 1 TPK1 Chr:7q34-q35 NM_022445 Hs.127548 5.8 Above 1.6
87 205330_at meningioma (disrupted in balanced translocation) 1 MN1 Chr:22q11 NM_002430 Hs.268515 5.8 Above 2.8
88 202255_s_at signal-induced proliferation-associated 1-like 1 KIAA0440 Chr:14q24.1 NM_015556 Hs.172180 5.8 Above 2.6
89 220668_s_at DNA (cytosine-5-)-methyltransferase 3 beta DNMT3B Chr:20q11.2 NM_006892 Hs.251673 -5.8 Below 2.5
90 204929_s_at vesicle-associated membrane protein 5 (myobrevin) VAMP5 Chr:2p11.2 NM_006634 Hs.74669 5.7 Above 2.0
91 221497_x_at egl nine homolog 1 (C. elegans) EGLN1 Chr:1q42.1 BC005369 Hs.130946 5.7 Above 1.8
92 218749_s_at hypothetical protein FLJ22233 FLJ22233 Chr:12q24.21 NM_024959 Hs.286194 -5.7 Below 1.8
93 216832_at core-binding factor, runt domain, alpha subunit 2; translocated to, 1; cyclin D-related CBFA2T1 Chr:8q22 AF018283 Hs.90858 5.7 Above 1.8
94 202370_s_at core-binding factor, beta subunit CBFB Chr:16q22.1 NM_001755 Hs.179881 -5.7 Below 1.5
95 212706_at DNA directed RNA polymerase II polypeptide J-related gene POLR2J2 Chr:7q11.22 AB011110 Hs.406505 5.7 Above 1.7
96 207081_s_at phosphatidylinositol 4-kinase, catalytic, alpha polypeptide PIK4CA Chr:22q11.21 NM_002650 Hs.334874 -5.7 Below 1.4
97 217080_s_at homer homolog 2 (Drosophila) HOMER2 Chr:15q24.3 Y19026 Hs.93564 5.7 Above 1.9
98 203733_at dexamethasone-induced transcript DEXI Chr:16p13.2 NM_014015 Hs.157925 -5.7 Below 4.3
99 201473_at jun B proto-oncogene JUNB Chr:19p13.2 NM_002229 Hs.400124 5.7 Above 2.0
100 217023_x_at --- --- --- AF099143 --- 5.7 Above 3.7