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Table 3 List of 80 genes able to discriminate between poorly differentiated DCIS and invasive grade 3 breast tumours

From: Classification of ductal carcinoma in situ by gene expression profiling

Rank NKI ID Symbol Annotation Accession no.
1 123776 PIAS4 Protein inhibitor of activated STAT protein H30547
2 129658 MGC13045 DnaJ (Hsp40) homolog, subfamily C, member 4 AA996059
3 121937 FLJ10374 Hypothetical protein FLJ10374 AA676962
4 102847 YIF1 Putative transmembrane protein; homolog of yeast Golgi membrane protein Yif1p (Yip1p-interacting factor) H79351
5 127755 TGFB2 Transforming growth factor, beta 2 W47556
6 117289 MMP11 Matrix metalloproteinase 11 (stromelysin 3) AA045500
7 104973 SYNPO2 Synaptopodin 2 R31679
8 121066 DAPK3 Death-associated protein kinase 3 AA973730
9 128493 GMFG Glia maturation factor, gamma AI311932
10 105533 ARF1 ADP-ribosylation factor 1 W45572
11 132031   NY-REN-24 antigen AA918005
12 127881 NFIC Nuclear factor I/C (CCAAT-binding transcription factor) T59427
13 120649 KCTD5 Potassium channel tetramerisation domain containing 5 AA521027
14 120934 EIF4G1 Eukaryotic translation initiation factor 4 gamma, 1 R37276
15 105453 PSAP Prosaposin (variant Gaucher disease and variant metachromatic leukodystrophy) N72215
16 112695 SYNPO2 H. sapiens cDNA FLJ20767 fis, clone COL06986 AA043349
17 101577 BMI1 Murine leukaemia viral (bmi-1) oncogene homolog AA478036
18 105479 BAT3 HLA-B-associated transcript-3 AA434416
19 123071 C9orf82 Hypothetical protein FLJ13657 AA135972
20 101638 ID4 Inhibitor of DNA binding 4, dominant negative helix-loop-helix protein AA464856
21 115306 LRP16 LRP16 protein AA456318
22 118143 STX1B2 ESTs, moderately similar to ST1B_HUMAN SYNTAXIN 1B [H. sapiens] H41572
23 128106 DUSP6 Dual specificity phosphatase 6 AA455254
24 115676 RPS15A Ribosomal protein S15a AA411682
25 108595 CCL19 Small inducible cytokine subfamily A (Cys-Cys), member 19 AA680186
26 126589 C6orf166 Hypothetical protein FLJ10342 AA984953
27 131540 PRPF31 DKFZP566J153 protein AI253017
28 109065 SYT5   H39018
29 128198 MMP11 Matrix metalloproteinase 11 (stromelysin 3) AA954935
30 109364 MYST2 Histone acetyltransferase H11938
31 106989 TNFSF13 Tumour necrosis factor (ligand) superfamily, member 13 AA443577
32 109798    T82459
33 131890 CDH1 Cadherin 1, type 1, E-cadherin (epithelial) AI671174
34 111513 COG3 H. sapiens clone 25226 mRNA sequence AA461166
35 108645 HMGCS2 3-Hydroxy-3-methylglutaryl-Coenzyme A synthase 2 (mitochondrial) AA496149
36 101651 TRAP1 Heat shock protein 75 AA497020
37 105304 LRP16 LRP16 protein W52182 | AA284285
38 105363 ARL7 ADP-ribosylation factor-like 7 AA485683
39 127890 PTMS Parathymosin AA458981
40 118682 NBS1 Nijmegen breakage syndrome 1 (nibrin) H98655
41 108997 PTTG1IP Pituitary tumour-transforming 1 interacting protein AA156461
42 110281 HSPA1L Heat shock 70-kD protein-like 1 H17513
43 125700 APC2 Adenomatous polyposis coli like AA976241
44 117139 ALDOB Aldolase B, fructose-bisphosphate H72098
45 107595 SOX17 SRY-box 17 AA427400 | AI732705
46 107375 NUCKS Similar to rat nuclear ubiquitous casein kinase 2 AA137266
47 109238 BSG Basigin (OK blood group) AA436440
48 122821 NSE2 ESTs H30453
49 123689 LOC339123 STIP1 homology and U-Box containing protein 1 R54844
50 115953 LOC146542 Human Chromosome 16 BAC clone CIT987SK-A-635H12 AA455010
51 108960 GABRD   H41122
52 128222 GLUL Glutamate-ammonia ligase (glutamine synthase) AI000103
53 100222 NFIX Nuclear factor I/X (CCAAT-binding transcription factor) AA406269
54 105470 ISYNA1 Myo-inositol 1-phosphate synthase A1 AA454554
55 117998 RBM9 RNA binding motif protein 9 H03903
56 105404 GDF15 Prostate differentiation factor N26311
57 127811 TOB1 Transducer of ERBB2, 1 W96163
58 105524 RPS6KA4 Ribosomal protein S6 kinase, 90-kD, polypeptide 4 AA443601
59 109232 BCKDHA Branched chain keto acid dehydrogenase E1, alpha polypeptide (maple syrup urine disease) AA477298
60 115741 APPL Adaptor protein containing pH domain, PTB domain and leucine zipper motif AA436158
61 100898 ELF3 E74-like factor 3 (ets domain transcription factor, epithelial-specific) AA434373
62 101067 MAP7 Microtubule-associated protein 7 R77252 | R77251
63 109306 AQP1 Aquaporin 1 (channel-forming integral protein, 28 kD) H24316
64 102326 CYC1 Cytochrome c-1 AA447774
65 108988 MALAT1 Histone deacetylase 3 H88540
66 102253 ACTG2 Actin, gamma 2, smooth muscle, enteric T60048
67 116834 GPC1 Glypican 1 AA455896
68 105497 HNRPK Heterogeneous nuclear ribonucleoprotein K W85697
69 108372 LCP1 Lymphocyte cytosolic protein 1 (L-plastin) W73144
70 128634 PRCP Prolylcarboxypeptidase (angiotensinase C) AI360366
71 106297 PHF17 Hypothetical protein FLJ22479 AA136664
72 101616 KRT19 Keratin 19 AA464250
73 128532 LTB Lymphotoxin beta (TNF superfamily, member 3) AI351740
74 102385 F13A1 Coagulation factor XIII, A1 polypeptide AA449742
75 102673 WHSC1L1 Wolf-Hirschhorn syndrome candidate 1-like 1 T97900
76 109638 CXXC1 CpG binding protein T60082
77 109116 FBL Fibrillarin AA663986
78 109425 TUBB Tubulin, beta polypeptide AA427899
79 117500   EST AA621138
80 100656 UBE2C Ubiquitin carrier protein E2-C AA430504
  1. DCIS, ductal carcinoma in situ; EST, expressed sequence tag; NKI ID, Netherlands Cancer Institute (Amsterdam, The Netherlands) identification number.
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