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Table 4 Response prediction gene lists.

From: The effect of the stromal component of breast tumours on prediction of clinical outcome using gene expression microarray analysis

Symbol Genbank accession Unigene cluster ID All Low Mid High Name
ZNF146 NM_007145 Hs.444223 100 100 100 0 Zinc finger protein 146
RFC3 CR749565 Hs.115474 100 12 100 0 Replication factor C (activator 1) 3, 38kDa
DLD NM_000108 Hs.74635 100 4 100 0 Dihydrolipoamide dehydrogenase
EIF3S8 NM_003752 Hs.534402 0 100 58 0 Eukaryotic translation initiation factor 3, subunit 8
SOD1 BF131654 Hs.443914 0 91 25 0 Superoxide dismutase 1, soluble (amyotrophic lateral sclerosis 1 (adult))
PBEF1 NM_005746 Hs.293464 25 0 0 88 Pre-B-cell colony enhancing factor 1
CD9 AK025016 Hs.387579 0 100 0 0 CD9 antigen (p24)
TCEB1 NM_005648 Hs.435169 0 100 0 0 Transcription elongation factor B (SIII), polypeptide 1 (15kDa, elongin C)
IGFBP4 CR603382 Hs.1516 0 0 100 0 Insulin-like growth factor binding protein 4
STMN1 BX647885 Hs.209983 0 0 100 0 Stathmin 1/oncoprotein 18
NDRG1 AK124709 Hs.318567 0 0 0 100 N-myc downstream regulated gene 1
PAM NM_000919 Hs.352733 0 0 0 100 Peptidylglycine alpha-amidating monooxygenase
ARHE X97758 Hs.6838 20 0 0 76 Ras homolog gene family, member E
MAPK6 NM_002748 Hs.271980 95 0 0 0 Mitogen-activated protein kinase 6
SFRS11 BX640645 Hs.443458 0 91 0 0 Splicing factor, arginine/serine-rich 11
TESK1 BC038448 Hs.79358 79 0 0 0 Testis-specific kinase 1
THRAP3 NM_005119 Hs.250113 60 0 0 0 Thyroid hormone receptor associated protein 3
PTPN7 AK127214 Hs.402773 55 0 0 0 Protein tyrosine phosphatase, non-receptor type 7
PSMC6 AK127456 Hs.156171 0 41 0 0 Proteasome (prosome, macropain) 26S subunit, ATPase, 6
CD47 NM_001777 Hs.446414 0 0 37 0 CD47 antigen (Rh-related antigen, integrin-associated signal transducer)
REST NM_005612 Hs.401145 23 0 12 0 RE1-silencing transcription factor
PCNA NM_002592 Hs.78996 0 0 33 0 Proliferating cell nuclear antigen
CTPS BC009408 Hs.251871 0 0 16 0 CTP synthase
ARL6IP BC010281 Hs.75249 0 12 0 0 ADP-ribosylation factor-like 6 interacting protein
CDH1 NM_004360 Hs.194657 0 12 0 0 Cadherin 1, type 1, E-cadherin (epithelial)
ITSN1 AF064244 Hs.66392 0 0 0 12 Intersectin 1 (SH3 domain protein)
GATA4 NM_002052 Hs.243987 9 0 0 0 GATA binding protein 4
SNRPB BM564070 Hs.83753 0 8 0 0 Small nuclear ribonucleoprotein polypeptides B and B1
DLG7 NM_014750 Hs.77695 0 0 8 0 Discs, large homolog 7 (Drosophila)
KCNN3 BX649146 Hs.89230 0 0 0 8 Potassium intermediate/small conductance calcium-activated channel
  1. The genes used in the prediction for the full set of samples ('all') and for each of the subsets (defined in Table 3). For each subset, the genes listed are those used in the minimum error rate predictor (except for the 'all' category, for which a seven-gene predictor was selected to observe a longer gene list to allow comparison with the other gene lists). The 'support' given for each gene refers to the percentage of the leave-one-out cross-validations in which the gene was used. Only genes that attain cumulative support across 'all' and the subsets of at least 8% are shown.
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