Table 4.

Genes predictive for early MDS by neighborhood analysis

Rank
Accession no.
Gene symbol
Definition
1   AA761181  CD24  CD24 antigen  
2  NM_006235 POU2AF1  POU domain, class 2, associating factor 1  
3   AK000168   —   —  
4  NM_007128 VPREB1  Pre-B lymphocyte gene 1  
5  NM_013378 VPREB3  Pre-B lymphocyte gene 3  
6  NM_000626 CD79B  CD79B antigen  
7   M11722  DNTT  Terminal deoxynucleotidyltransferase  
8   BF510692  PAX5  Paired box gene 5  
9   AF288571  LEF1  Lymphoid enhancer-binding factor 1  
10  NM_021813 BACH2  BTB and CNC homology 1  
11   A1084226  TOSO  Regulator of Fas-induced apoptosis  
12  NM_014879 GPR1105  G protein-coupled receptor 105  
13   AV699347   —  FLJ21545 fis, clone COL06195 
14   AA628440   —  FLJ21545 fis, clone COL06195 
15   AL136653  C10orf10  Chromosome 10 open reading frame 10  
16  NM_014863 GALNAC4S-6ST  B-cell RAG-associated protein  
17   AB050468  LRIG1  Leucine-rich repeats and Ig-like domains 1  
18  NM_018986 FLJ20356  Hypothetical protein FLJ20356 
19  NM_002003 FCN1  Ficolin 1  
20   AB003476  AKAP12  A kinase (PRKA) anchor protein (gravin) 12  
21  NM_030751 TCF8  Transcription factor 8  
22  NM_007287 MME  Membrane metalloendopeptidase (CD10)  
23   A1349506  C18orf1  Chromosome 18 open reading frame 1  
24   D13889  ID1  Inhibitor of DNA binding 1  
25  NM_013314 BLNK  B-cell linker  
26   X00452  HLA-DQA1  MHC, class II, DQ alpha 1  
27  NM_006887 ZFP36L2  Zinc finger protein 36, C3H type-like 2  
28   L01639  CXCR4  Chemokine (C-X-C motif) receptor 4  
29  NM_019058 RTP801  HIF-1 responsive RTP801  
30  NM_002341 LTB  Lymphotoxin beta  
31  NM_001442 FABP4  Fatty acid binding protein 4  
32   BF672975  LPL  Lipoprotein lipase  
33   M87789  IGHG3  Ig heavy chain constant gamma 3  
34   U88964  ISG20  Interferon-stimulated gene 20 kDa  
35   M16276  HLA-DQB1  MHC, class II, DQ beta 1  
36  NM_005904 MADH7  Mothers against decapentaplegic homolog 7  
37   AF348491  CXCR4  Chemokine (C-X-C motif) receptor 4  
38  NM_002201 ISG20  Interferon-stimulated gene 20 kDa  
39  NM_014747 RIMS3  Regulator of synaptic membrane exocytosis 3  
40  NM_004591 CCL20  Chemokine (C-C motif) ligand 20  
41   AK025348  KIAA1025  KIAA1025 protein  
42   AU147399  CAV1  Caveolin 1  
43  NM_004684 SPARCL1  SPARC-like 1  
44   L20966  PDE4B  cAMP-specific phosphodiesterase 4B  
45   BF725121  SKIL  SKI-like  
46   N30339  COL5A1  Collagen, type V, alpha 1  
47   AJ224869   —   —  
48  NM_020070 IGLL1  Ig lambda-like polypeptide 1  
49  NM_016459 PACAP  Proapoptotic caspase adaptor protein  
50  NM_000591 CD14  CD14 antigen  
51  NM_005346 HSPA1B  Heat shock 70 kDa protein 1B  
52   AF052094  EPAS1  Endothelial PAS domain protein 1  
53   AI962377  PPFIBP1  PTPRF interacting protein, binding protein 1  
54   AW276186  HLA-DQB1  MHC, class II, DQ beta 1  
55   BC001131  H1ST1H2BG  Histone 1, H2bg  
56   AW814026   —  FLJ21350 fis, clone COL02751 
57  NM_024070 STAG3  Stromal antigen 3  
58   S77154  NR4A2  Nuclear receptor 4A2  
59  NM_018371 ChGn  Chondroitin beta 1,4 N-acetylgalactosaminyltransferase  
60   X17115  IGHM  Ig heavy chain constant mu  
61  NM_001882 CRHBP  Corticotropin releasing hormone binding protein  
62   BE465032  C6orf62  Chromosome 6 orf 62  
63  NM_002135 NR4A1  Nuclear receptor 4A1  
64  NM_024914 MADH1  Mothers against decapentaplegic homolog 1  
65  NM_004199 P4HA2  Proline 4-hydroxylase, alpha polypeptide II  
66  NM_006169 NNMT  Nicotinamide N-methyltransferase  
67   BE973687  HES1  Hairy and enhancer of split 1  
68   BG495771  TCF4  Transcription factor 4  
69  NM_018292 QRSL1  Glutaminyl-tRNA synthase-like 1  
70   U54826  MADH1  Mothers against decapentaplegic homolog 1  
71  NM_002922 RGS1  Regulator of G-protein signaling 1  
72   M87790  IGL @  Ig lambda locus  
73   X89894  NR4A3  Nuclear receptor 4A3  
74   BG546884  CRIM1  Cysteine-rich motor neuron 1  
75   AL022324   —   IMAGE clone 5728597  
76  NM_001769 CD9  CD9 antigen (p24)  
77   AW117498  FOXO1A  Forkhead box O1A  
78  NM_002167 ID3  Inhibitor of DNA binding 3  
79  NM_006186 NR4A2  Nuclear receptor 4A2  
80   AL535380  BTG1  B-cell translocation gene 1  
81   D86983  D2S448  Melanoma-associated gene  
82  NM_018678 C14orf43  Chromosome 14 orf 43  
83  NM_005261 GEM  GTP binding protein overexpressed in skeletal muscle  
84  NM_000237 LPL  Lipoprotein lipase  
85   BF433429  TCF4  Transcription factor 4  
86  NM_001261 CDK9  Cyclin-dependent kinase 9 (CDC2-related kinase)  
87   AF077048  SSBP2  Single-stranded DNA binding protein 2  
88  NM_001731 BTG1  B-cell translocation gene 1  
89
 		NM_004338
 		C18orf1
 		 Chromosome 18 orf 1
 
Rank
Accession no.
Gene symbol
Definition
1   AA761181  CD24  CD24 antigen  
2  NM_006235 POU2AF1  POU domain, class 2, associating factor 1  
3   AK000168   —   —  
4  NM_007128 VPREB1  Pre-B lymphocyte gene 1  
5  NM_013378 VPREB3  Pre-B lymphocyte gene 3  
6  NM_000626 CD79B  CD79B antigen  
7   M11722  DNTT  Terminal deoxynucleotidyltransferase  
8   BF510692  PAX5  Paired box gene 5  
9   AF288571  LEF1  Lymphoid enhancer-binding factor 1  
10  NM_021813 BACH2  BTB and CNC homology 1  
11   A1084226  TOSO  Regulator of Fas-induced apoptosis  
12  NM_014879 GPR1105  G protein-coupled receptor 105  
13   AV699347   —  FLJ21545 fis, clone COL06195 
14   AA628440   —  FLJ21545 fis, clone COL06195 
15   AL136653  C10orf10  Chromosome 10 open reading frame 10  
16  NM_014863 GALNAC4S-6ST  B-cell RAG-associated protein  
17   AB050468  LRIG1  Leucine-rich repeats and Ig-like domains 1  
18  NM_018986 FLJ20356  Hypothetical protein FLJ20356 
19  NM_002003 FCN1  Ficolin 1  
20   AB003476  AKAP12  A kinase (PRKA) anchor protein (gravin) 12  
21  NM_030751 TCF8  Transcription factor 8  
22  NM_007287 MME  Membrane metalloendopeptidase (CD10)  
23   A1349506  C18orf1  Chromosome 18 open reading frame 1  
24   D13889  ID1  Inhibitor of DNA binding 1  
25  NM_013314 BLNK  B-cell linker  
26   X00452  HLA-DQA1  MHC, class II, DQ alpha 1  
27  NM_006887 ZFP36L2  Zinc finger protein 36, C3H type-like 2  
28   L01639  CXCR4  Chemokine (C-X-C motif) receptor 4  
29  NM_019058 RTP801  HIF-1 responsive RTP801  
30  NM_002341 LTB  Lymphotoxin beta  
31  NM_001442 FABP4  Fatty acid binding protein 4  
32   BF672975  LPL  Lipoprotein lipase  
33   M87789  IGHG3  Ig heavy chain constant gamma 3  
34   U88964  ISG20  Interferon-stimulated gene 20 kDa  
35   M16276  HLA-DQB1  MHC, class II, DQ beta 1  
36  NM_005904 MADH7  Mothers against decapentaplegic homolog 7  
37   AF348491  CXCR4  Chemokine (C-X-C motif) receptor 4  
38  NM_002201 ISG20  Interferon-stimulated gene 20 kDa  
39  NM_014747 RIMS3  Regulator of synaptic membrane exocytosis 3  
40  NM_004591 CCL20  Chemokine (C-C motif) ligand 20  
41   AK025348  KIAA1025  KIAA1025 protein  
42   AU147399  CAV1  Caveolin 1  
43  NM_004684 SPARCL1  SPARC-like 1  
44   L20966  PDE4B  cAMP-specific phosphodiesterase 4B  
45   BF725121  SKIL  SKI-like  
46   N30339  COL5A1  Collagen, type V, alpha 1  
47   AJ224869   —   —  
48  NM_020070 IGLL1  Ig lambda-like polypeptide 1  
49  NM_016459 PACAP  Proapoptotic caspase adaptor protein  
50  NM_000591 CD14  CD14 antigen  
51  NM_005346 HSPA1B  Heat shock 70 kDa protein 1B  
52   AF052094  EPAS1  Endothelial PAS domain protein 1  
53   AI962377  PPFIBP1  PTPRF interacting protein, binding protein 1  
54   AW276186  HLA-DQB1  MHC, class II, DQ beta 1  
55   BC001131  H1ST1H2BG  Histone 1, H2bg  
56   AW814026   —  FLJ21350 fis, clone COL02751 
57  NM_024070 STAG3  Stromal antigen 3  
58   S77154  NR4A2  Nuclear receptor 4A2  
59  NM_018371 ChGn  Chondroitin beta 1,4 N-acetylgalactosaminyltransferase  
60   X17115  IGHM  Ig heavy chain constant mu  
61  NM_001882 CRHBP  Corticotropin releasing hormone binding protein  
62   BE465032  C6orf62  Chromosome 6 orf 62  
63  NM_002135 NR4A1  Nuclear receptor 4A1  
64  NM_024914 MADH1  Mothers against decapentaplegic homolog 1  
65  NM_004199 P4HA2  Proline 4-hydroxylase, alpha polypeptide II  
66  NM_006169 NNMT  Nicotinamide N-methyltransferase  
67   BE973687  HES1  Hairy and enhancer of split 1  
68   BG495771  TCF4  Transcription factor 4  
69  NM_018292 QRSL1  Glutaminyl-tRNA synthase-like 1  
70   U54826  MADH1  Mothers against decapentaplegic homolog 1  
71  NM_002922 RGS1  Regulator of G-protein signaling 1  
72   M87790  IGL @  Ig lambda locus  
73   X89894  NR4A3  Nuclear receptor 4A3  
74   BG546884  CRIM1  Cysteine-rich motor neuron 1  
75   AL022324   —   IMAGE clone 5728597  
76  NM_001769 CD9  CD9 antigen (p24)  
77   AW117498  FOXO1A  Forkhead box O1A  
78  NM_002167 ID3  Inhibitor of DNA binding 3  
79  NM_006186 NR4A2  Nuclear receptor 4A2  
80   AL535380  BTG1  B-cell translocation gene 1  
81   D86983  D2S448  Melanoma-associated gene  
82  NM_018678 C14orf43  Chromosome 14 orf 43  
83  NM_005261 GEM  GTP binding protein overexpressed in skeletal muscle  
84  NM_000237 LPL  Lipoprotein lipase  
85   BF433429  TCF4  Transcription factor 4  
86  NM_001261 CDK9  Cyclin-dependent kinase 9 (CDC2-related kinase)  
87   AF077048  SSBP2  Single-stranded DNA binding protein 2  
88  NM_001731 BTG1  B-cell translocation gene 1  
89
 		NM_004338
 		C18orf1
 		 Chromosome 18 orf 1
 

Eighty-nine probe sets (corresponding to 80 genes) derived from neighborhood analysis are shown in rank order of prediction.

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