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Supplemental Table 1 . Clinical data for the 123-sample set prospectively analyzed by microarray and qRT-PCR | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4 | Unnamed: 5 | Unnamed: 6 | Unnamed: 7 | Unnamed: 8 | Unnamed: 9 | Unnamed: 10 | Unnamed: 11 | Unnamed: 12 | Unnamed: 13 | Unnamed: 14 | Unnamed: 15 | Unnamed: 16 | Unnamed: 17
Sample Name | Age | Race | [NAME] (1= <=2cm; 2= >2cm to <=5cm; 3=>5cm; 4=any size with direct extension to chest wall or skin) | [NAME] (0=no positive nodes; 1=at least 1 node positive) | Number of nodes positive | Number of nodes examined | Metastasis Status (0=no mets; 1=mets) | Grade | RFS event (0=no relapse, 1=relapsed or died of disease) | [NAME] months | Overall Survival Event (0=alive, 1=DOD or DOC) | Overall suvival months | ER  (1=positive; 0=negative) | PGR  (1=positive; 0=negative) | HER2  (1=positive; 0=negative) | Histological Diagnosis | Intrinsic Class Assignment
02573-BC-PRIMARY | 41 | AA | 3 | 1 | 14 | 25 | 0 | 3 | 1 | 10 | 0 | 22 | 1 |  |  | IDC | HER2
A1-17-left-breast-T | 64 | C | 4 | 1 |  |  | 1 | 3 | 1 | 2 | 1 | 2 | 0 |  | 0 | IDC | Basal
A4-LUL_Lung-Met | 44 | C | 4 | 1 |  |  | 1 | 3 | 1 | 22 | 1 | 22 | 1 |  |  | IDC | HER2
A5-Skin#1_Right-Met | 65 | AA | 4 | 1 | 3 | 14 | 1 | 3 | 1 | 26 | 1 | 26 | 0 |  |  | IDC | Basal
BC0004 | 67 | C | 1 | 0 | 0 | 20 | 0 | 2 | 0 | 118 | 0 | 118 | 0 |  |  |  | Luminal
BC00010 | 47 | C | 3 | 1 | 19 | 21 | 0 | 2 | 1 | 16 | 1 | 16 | 0 |  |  |  | HER2
BC00014T | 69 | AA | 4 | 1 | 36 | 40 | 0 | 3 | 1 | 18 | 1 | 23 | 0 |  |  |  | Normal-Like
BC00024 | 68 | AA | 3 | 1 | 14 | 116 | 0 | 3 | 1 | 3 | 1 | 3 | 0 |  |  | IDC | Basal
BC00029 | 44 | C |  | 1 | 3 | 7 | 0 | 3 | 0 | 62 | 0 | 62 | 0 | 0 |  | IDC | Basal
BC00034 | 68 | AA | 1 | 0 |  |  | 0 | 2 | 0 | 81 | 0 | 81 | 0 |  |  |  | Luminal
BC00036 | 55 | AA | 2 | 1 | 1 | 23 | 0 | 2 | 0 | 10 | 0 | 10 | 0 |  |  |  | HER2
BC00041T | 46 | AA | 2 | 0 | 0 | 19 | 0 | 3 | 1 | 13 | 1 | 29 | 0 |  | 0 | IDC | Basal
BC00043T | 43 | C | 2 | 0 | 0 | 24 | 0 | 3 | 0 | 76 | 0 | 76 | 0 |  |  | IDC | Basal
BC00049 | 43 | C | 2 | 1 | 1 | 13 | 0 | 3 | 1 | 48 | 0 | 72 | 0 |  |  | IDC | Basal
BC00051 | 51 | C | 2 | 1 | 12 | 12 | 0 | 2 | 0 | 68 | 0 | 68 | 0 |  |  |  | HER2
BC00052 post chemo | 47 | AA | 2 | 1 | 9 | 13 | 0 | 3 | 1 | 14 | 1 | 18 | 0 |  | 2 | ILC | HER2
BC00053 | 71 | AA | 2 | 1 | 7 | 21 | 0 | 3 | 1 | 27 | 1 | 28 | 0 |  |  |  | HER2
BC00057 post chemo | 51 | AA | 4 | 1 | 9 | 9 | 0 | 3 | 1 | 8 | 1 | 12 | 0 |  | 3 | IDC | Basal
BC00064 RECUR | 44 | C | 1 | 1 |  |  | 0 | 3 | 1 | 10 | 1 | 47 | 0 |  | 2 | IDC | Basal
BC00066 | 43 | AA | 3 | 1 | 4 | 38 | 0 | 3 | 1 | 18 | 1 | 18 | 0 |  | 3 |  | Normal-Like
BC00070 | 38 | AA | 2 | 0 |  |  | 0 | 2 | 1 | 22 | 1 | 25 | 0 |  | 0 | IDC | Basal
BC00071 | 33 | C | 2 | 1 | 4 | 20 | 0 | 2 | 1 | 16 | 1 | 47 | 0 |  |  |  | HER2
BC00078 | 68 | AA | 3 | 1 | 12 | 16 | 0 | 3 | 0 | 12 | 1 | 12 | 0 |  | 0 | IDC | Basal
BC00082 | 84 | AA | 2 | 0 | 0 | 3 | 0 | 3 | 0 | 27 | 1 | 27 | 0 |  | 0 | IDC | Basal
BC00085 | 24 | AA | 1 | 0 |  |  | 0 | 2 | 0 | 19 | 0 | 19 | 0 |  | 1 | IDC | Basal
BR00-0344B | 65 | AA | 2 | 1 | 2 | 15 | 0 | 3 | 1 | 7 | 1 | 30 | 1 | 0 | 0 | IDC | HER2
BR00-0365B | 43 | AA | 4 | 1 | 6 | 8 | 0 | 3 | 0 | 22 | 0 | 22 | 1 | 1 | 2 | IDC | Luminal
[NAME] | 57 | AA | 4 | 1 | 10 | 17 | 0 | 2 | 1 | 6 | 0 | 51 | 1 | 1 | 0 | IDC | Luminal
BR00-0504B | 88 | C | 2 | 1 | 1 | 15 | 0 | 1 | 0 | 39 | 0 | 39 | 1 | 1 | 0 | IDC | Luminal
BR00-0572B | 45 | AA | 3 | 1 | 7 | 31 | 0 | 3 | 1 | 11 | 0 | 42 | 0 | 0 | 0 | IDC | Luminal
BR00-0587B | 68 | C | 2 | 0 | 0 | 14 | 0 | 3 | 0 | 37 | 0 | 37 | 1 | 1 | 2 | IDC | Basal
BR00-284B | 63 | C | 3 | 0 | 0 | 6 | 0 | 3 | 0 | 43 | 0 | 43 | 0 | 0 | 3 | IDC | Luminal
BR01-0125B | 40 | C | 3 | 1 | 1 | 17 | 0 | 2 | 0 | 33 | 0 | 33 | 1 | 1 | 0 | IDC | Luminal
BR01-0246B | 36 |  | 2 | 1 | 9 | 16 | 0 | 2 | 0 | 31 | 0 | 31 | 1 | 1 | 0 | IDC | Luminal
BR01-0349B | 37 | C | 3 | 1 | 22 | 24 | 0 | 3 | 1 | 3 | 1 | 24 | 1 | 0 | 3 | IDC | Luminal
BR94-1083B | 48 | C | 1 | 1 | 1 | 19 | 0 | 3 | 1 | 23 | 1 | 47 | 0 | 1 | 0 | IDC | Luminal
BR95-0035B | 74 | C | 2 | 1 | 1 | 13 | 0 | 3 | 0 | 106 | 0 | 106 | 0 | 0 | 0 | IDC | HER2
BR95-0152B | 72 | C | 4 | 0 | 0 | 15 | 0 | 3 | 1 | 26 | 0 | 101 | 1 | 0 |  | IDC | Luminal
BR95-0184B | 74 | C | 2 | 1 | 1 | 20 | 0 | 3 | 0 | 96 | 0 | 96 | 1 | 0 |  | IDC | Luminal
BR96-0014B | 47 | AA | 4 | 1 |  |  | 0 | 1 | 0 | 96 | 0 | 96 | 1 | 1 | 0 | IDC | Luminal
BR97-0137B | 55 |  | 3 | 1 | 1 | 21 | 0 | 3 | 1 | 20 | 1 | 21 | 0 | 0 |  | IDC | Basal
BR98-0161B | 57 | AA | 2 | 1 | 0 | 24 | 0 | 2 | 1 | 36 | 1 | 60 | 0 | 0 | 0 | IDC | Luminal
BR98-0261B | 44 | C | 2 | 0 | 0 | 14 | 0 | 3 | 0 | 65 | 0 | 65 | 0 | 0 | 0 | IDC | Basal
BR99-0207B | 84 | C | 2 | 1 | 1 | 5 | 0 | 2 | 0 | 57 | 0 | 57 | 1 | 0 | 0 | IDC | Luminal
BR99-0348B | 85 | AA | 2 | 0 | 0 | 33 | 0 | 2 | 0 | 32 | 0 | 32 | 1 | 1 | 2 | IDC | Luminal
HCI00-039 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | Normal | Normal-Like
HCI00-052 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | Normal | Normal-Like
HCI00-098L |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | IDC | Basal
HCI00-263 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | Normal | Normal-Like
HCI01-041 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | Normal | Normal-Like
HCI01-155 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | Normal | Normal-Like
HCI02-235 | 57 | C | 2 | 0 | 0 | 12 | 0 | 3 |  |  |  |  | 0 | 0 | 0 | IDC | Basal
HCI00-192 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | IDC | Normal-Like
MB75 | 53 |  | 2 | 0 | 0 | 15 |  | 3 | 0 | 20 | 0 | 20 | 1 | 1 | 3 | IDC | Luminal
MB76 | 57 |  | 2 | 0 | 0 | 11 |  | 2 | 0 | 22 | 0 | 22 | 1 | 1 | 0 | IDC | Luminal
MB77 | 63 |  | 2 | 0 | 0 | 17 |  | 3 | 0 | 22 | 0 | 22 | 1 | 1 | 0 | IDC | Luminal
MB78 | 56 |  | 2 | 1 | 4 | 5 |  | 3 |  |  |  |  | 0 | 0 | 2 | IDC | HER2
MB79 | 63 |  | 2 | 0 | 0 | 7 |  | 3 | 0 | 18 | 0 | 18 | 1 | 1 | 3 | IDC | Luminal
MB80 | 58 |  | 2 | 0 | 0 | 0 | 1 | 3 |  |  |  |  | 1 | 1 | 0 | IDC | Luminal
MB81 | 84 |  | 2 | 1 | 1 | 1 |  | 2 | 1 | 13 | 0 | 16 | 1 | 1 | 0 | ILC | Luminal
MB83 | 31 |  | 2 | 0 | 0 | 17 |  | 3 |  |  |  |  | 0 | 0 | 0 | IDC | Basal
MB85 | 77 |  | 2 | 1 | 2 | 11 |  | 3 |  |  |  |  | 1 | 1 | 0 | IDC | Luminal
MB86(LN) | 72 |  |  | 1 | 7 | 17 |  | 3 | 1 | 16 | 0 | 40 | 0 | 0 | 0 | IDC | Basal
MB87 | 73 |  |  | 1 | 1 | 1 | 1 | 3 |  |  |  |  | 0 | 0 | 0 | IDC | Basal
PB120-MET-L | 61 | AA | 2 | 1 | 14 | 15 | 0 | 3 | 1 | 1 | 1 | 13 | 0 |  |  | IDC | Basal
PB126 | 29 | AA | 4 | 1 | 7 | 7 | 0 | 3 | 1 | 1 | 1 | 16 | 0 | 0 | 0 | IDC | Basal
PB126-MET-LN |  | AA |  |  | 7 | 7 |  |  |  |  |  |  | 0 | 0 | 0 |  | Basal
[NAME] | 58 | C | 2 | 0 | 0 | 0 | 0 | 2 | 0 | 30 | 0 | 30 | 0 | 0 | 0 | IDC | Basal
PB149 | 41 | C | 2 | 0 | 0 | 10 | 0 | 1 | 0 | 34 | 0 | 34 | 1 | 1 | 2 | IDC | Luminal
PB152-MET-LN |  | C |  |  |  |  |  |  |  |  |  |  | 0 | 0 | 1 |  | Basal
PB158T | 86 | AA | 3 | 0 | 0 | 0 | 0 | 3 | 0 | 30 | 0 | 30 | 1 |  |  | IDC | Luminal
PB184 | 50 | C | 1 | 0 | 0 | 2 | 0 | 3 | 0 | 29 | 0 | 29 | 1 | 0 | 3 | IDC | Basal
PB205T | 39 | C | 4 | 1 | 1 | 7 | 1 | 2 | 0 | 5 | 0 | 5 | 0 | 0 | 1 | IDC | Basal
PB244 | 38 | AA | 1 | 0 | 0 | 12 | 0 | 3 | 0 | 24 | 0 | 24 | 0 | 0 | 3 | IDC | Basal
PB249 | 36 | C | 1 | 1 | 3 | 3 | 0 | 3 | 0 | 8 | 0 | 8 | 1 | 1 | 3 | IDC | Luminal
[NAME] | 56 | C | 2 | 1 | 1 | 14 | 0 | 3 | 0 | 4 | 0 | 4 | 1 | 1 | 2 | IDC | Luminal
PB267 | 44 | AA | 2 | 1 | 1 | 32 | 1 | 3 | 0 | 20 | 0 | 20 | 0 | 0 | 2 | IDC | Basal
PB271 | 45 | AA | 2 | 1 | 3 | 12 | 0 | 3 | 0 | 14 | 0 | 14 | 1 | 1 | 3 | ILC | Normal-Like
PB277 | 46 | C | 2 | 1 | 9 | 18 | 0 | 3 | 0 | 12 | 0 | 12 | 1 | 1 | 2 | IDC | Luminal
[NAME] | 34 | C | 1 | 0 | 0 | 0 | 0 | 1 |  |  |  |  | 1 | 1 | 2 | IDC | Luminal
PB293 | 56 | C | 2 | 0 | 0 | 12 | 0 | 2 | 0 | 11 | 0 | 11 | 1 | 1 | 2 | IDC | Luminal
PB297 | 55 | AA | 2 | 0 | 0 | 0 | 0 | 3 | 0 | 18 | 0 | 18 | 0 | 0 | 1 | IDC | Basal
PB307 | 35 |  | 3 | 0 | 0 | 15 | 0 | 3 | 0 | 9 | 0 | 9 | 1 | 1 | 1 | IDC | Luminal
PB311 | 48 | C | 3 | 1 | 2 | 12 | 0 | 3 | 0 | 14 | 0 | 14 | 1 | 1 | 0 | IDC | Luminal
PB314 | 51 | C | 3 | 1 | 8 | 13 | 0 | 3 | 0 | 21 | 0 | 21 | 0 | 0 | 3 | IDC | HER2
PB334 | 50 | AA | 1 | 0 | 0 | 0 | 0 | 3 | 0 | 19 | 0 | 19 | 0 | 0 | 0 | IDC | Basal
[NAME] | 67 | C | 2 | 1 | 2 | 11 | 0 | 3 | 0 | 20 | 0 | 20 | 1 | 1 | 0 | ILC | Luminal
PB376 | 50 | AA | 2 | 0 | 0 | 3 | 0 | 3 | 0 | 15 | 0 | 15 | 0 | 0 | 1 | IDC | HER2
PB377 | 77 | C | 2 | 0 | 0 | 8 | 0 | 3 | 0 | 18 | 0 | 18 | 1 | 0 | 1 | IDC | Basal
PB379 | 55 |  | 2 | 1 | 4 | 12 | 0 | 3 | 0 | 17 | 0 | 17 | 1 | 1 | 1 | IDC | Luminal
PB388 | 80 | C | 2 | 0 | 0 | 5 | 0 | 3 | 0 | 16 | 0 | 16 | 1 | 1 | 1 | IDC | Luminal
PB407 | 56 | C | 3 | 1 | 6 | 11 |  | 3 |  |  |  |  | 1 | 1 | 0 | IDC | Luminal
PB413 | 63 | AA | 2 | 1 | 3 | 9 | 0 | 2 | 0 | 9 | 0 | 9 | 1 | 1 | 0 | IDC | Luminal
PB419 | 49 | C | 2 | 0 | 0 | 1 | 0 | 3 | 0 | 10 | 0 | 10 | 0 | 0 | 0 | IDC | Basal
[NAME] | 79 |  | 2 | 1 | 4 | 21 | 0 | 3 |  |  |  |  | 1 | 1 | 1 | IDC | Luminal
[NAME] | 83 | C | 1 | 0 | 0 | 0 | 0 | 2 | 0 | 9 | 0 | 9 | 1 | 1 | 0 | IDC | Luminal
[NAME] | 52 | AA | 3 | 1 | 3 | 8 | 0 | 2 | 0 | 9 | 0 | 9 | 0 | 0 | 3 | IDC | HER2
PB475 | 50 | C | 2 | 0 | 0 | 5 | 0 | 2 | 0 | 2 | 0 | 2 | 1 | 1 | 0 | IDC | Luminal
PB479 | 52 | Asian | 2 | 1 | 1 | 19 | 0 | 3 |  |  |  |  | 1 | 1 | 0 | IDC | Basal
[NAME] |  | AA | 3 | 1 | 2 | 14 | 0 | 3 |  |  |  |  | 0 | 0 | 0 | IDC | Basal
UB21 | 77 |  | 1 | 0 | 0 | 1 | 0 | 1 | 0 | 30 | 0 | 30 | 1 | 1 | 0 | IDC | Luminal
UB22 |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | FA | Normal-Like
UB27 | 91 | C | 3 | 1 | 2 | 14 | 0 | 2 | 0 | 29 | 0 | 29 | 1 | 1 | 2 | ILC | Luminal
UB28 | 46 | C | 1 | 0 | 0 | 20 | 0 | 3 | 0 | 30 | 0 | 30 | 0 | 0 | 0 | MC | Basal
UB29A | 59 | C | 2 | 0 | 0 | 19 | 0 | 3 | 0 | 25 | 0 | 25 | 0 | 0 | 0 | IDC | Basal
UB37 | 42 | C | 1 | 1 | 3 | 14 | 0 | 3 | 0 | 25 | 0 | 25 | 0 | 1 | 2 | IDC | HER2
UB38 | 50 | C | 1 | 0 | 0 | 13 | 0 | 1 | 0 | 20 | 0 | 20 | 1 | 1 | 0 | IDC | Luminal
UB39 | 48 | C | 1 | 0 | 0 | 10 | 0 | 2 | 0 | 25 | 0 | 25 | 1 | 0 | 0 | IDC | Luminal
UB43 | 48 | C | 1 | 1 | 14 | 14 | 0 | 3 | 0 | 19 | 0 | 19 | 1 | 1 | 1 | IDC | Luminal
UB44 | 50 | C | 2 | 1 | 1 | 3 | 0 | 2 | 0 | 24 | 0 | 24 | 1 | 1 | 0 | ILC | Luminal
UB45 | 46 | C | 2 | 1 | 1 | 5 | 0 | 2 | 0 | 21 | 0 | 21 | 1 | 1 | 1 | IDC | Luminal
UB55 | 58 | C | 1 | 0 | 0 | 4 | 0 | 1 | 0 | 22 | 0 | 22 | 1 | 1 | 2 | ILC | Luminal
UB57 | 60 | C | 1 | 0 | 0 | 2 | 0 | 2 | 0 | 17 | 0 | 17 | 1 | 1 | 0 | IDC | Luminal
UB58 | 58 | C | 1 | 1 | 1 | 4 | 0 | 2 | 0 | 19 | 0 | 19 | 1 | 1 | 1 | IDC | Normal-Like
UB60 | 72 | C | 2 | 1 | 10 | 13 | 0 | 3 | 0 | 20 | 0 | 20 | 0 | 0 | 3 | IDC | HER2
UB61 | 51 | C | 2 | 1 | 9 | 15 | 0 | 2 | 0 | 19 | 0 | 19 | 1 | 0 | 3 | IDC | Luminal
UB62 | 28 | C | 1 | 1 | 1 | 23 | 0 | 1 | 0 | 9 | 0 | 9 |  |  |  | IDC | Basal
UB64 | 87 | C | 2 | 0 | 0 | 15 | 0 | 2 | 0 | 7 | 0 | 7 | 1 | 1 | 3 | ILC | Normal-Like
UB66 | 88 |  | 2 | 0 | 0 | 18 | 0 | 1 | 0 | 9 | 0 | 9 | 1 | 1 | 0 | IDC | Luminal
UB67 | 80 | C | 1 | 1 | 1 | 15 | 0 | 3 | 0 | 16 | 0 | 16 | 0 | 0 | 0 | IDC | Basal
UB69 | 40 | C | 1 | 0 | 0 | 3 | 0 | 2 | 0 | 13 | 0 | 13 | 1 | 0 | 0 | ILC | Luminal
UB78 | 41 | Hispanic | 4 | 1 | 20 | 20 | 1 | 2 | 1 | 0 | 0 | 14 | 1 | 0 | 0 | IDC | Luminal
UB79 | 46 |  | 2 | 1 | 2 | 9 | 0 | 2 | 0 | 2 | 0 | 2 | 1 | 0 | 1 | IDC | Luminal