Table 4.
Differential Copy Number Alterations in Breast Cancer Subtypes and Racial Groups
| Cytogenetic Band* | ER-Negative vs ER-Positive | HER2 Positive vs HER2 Negative | Triple Negative (TN) vs Non-Triple Negative | African American (AA) vs Caucasian American (CA) | African American (AA) vs Caucasian American (CA) in Triple Negative Only** |
|---|---|---|---|---|---|
| 1p36 | AA | ||||
| 1p36 | CA | ||||
| 1p21 | CA | ||||
| 1q23 | TN | AA | |||
| 1q24 | TN | AA | |||
| 1q25 | TN | AA | |||
| 1q31 | AA | ||||
| 1q32 | ER-pos | non-TN | AA | ||
|
| |||||
| 2p25 | AA | ||||
| 2p16 | TN | ||||
| 2p15 | TN | ||||
|
| |||||
| 3p21 | ER-neg | TN | AA | ||
|
| |||||
| 4p16 | ER-neg | HER2 pos | TN | ||
| 4p15 | TN | CA | |||
| 4q13 | AA | ||||
| 4q31 | AA | ||||
|
| |||||
| 5p15 | CA | ||||
| 5p14 | AA | ||||
| 5p13 | CA | ||||
| 5q11 | ER-neg | TN | |||
| 5q13 | TN | ||||
| 5q31 | ER-neg | TN | AA | ||
| 5q35 | ER-neg | TN | AA | ||
|
| |||||
| 6p21 | CA | ||||
| 6q11 | AA | ||||
| 6q12 | AA | ||||
|
| |||||
| 7q31 | CA | ||||
| 7q36 | CA | ||||
|
| |||||
| 8p21 | HER2 pos | ||||
| 8q21 | TN | AA | |||
| 8q22 | AA | ||||
| 8q23 | AA | CA | |||
| 8q24 | ER-neg | TN | AA | ||
|
| |||||
| 9p21 | TN | ||||
| 9q32 | CA | ||||
| 9q33 | CA | ||||
| 9q34 | ER-neg | TN | AA | AA | |
|
| |||||
| 10p15 | ER-neg | TN | |||
| 10p14 | TN | ||||
| 10p13 | ER-neg | TN | |||
| 10p12 | ER-neg | TN | |||
| 10q22 | ER-neg | TN | AA | CA | |
| 10q23 | CA | ||||
| 10q25 | ER-neg | TN | AA | CA/AA | |
| 10q26 | ER-neg | TN | AA | AA | |
|
| |||||
| 11p15 | AA | ||||
| 11p11 | AA | ||||
| 11q13 | CA | ||||
| 11q13 | AA | ||||
| 11q23 | ER-pos | non-TN | |||
| 11q24 | ER-pos | non-TN | |||
| 11q25 | ER-pos | non-TN | CA | ||
|
| |||||
| 12p13 | TN | AA | |||
| 12p12 | TN | AA | |||
| 12q12 | CA | ||||
| 12q14 | CA | ||||
| 12q15 | CA | ||||
| 12q21 | CA | ||||
| 12q23 | ER-neg | TN | CA | ||
| 12q24 | ER-neg | TN | |||
|
| |||||
| 13q12 | ER-neg | HER2 pos | TN | ||
| 13q14 | TN | Ca | |||
| 13q32 | AA | ||||
| 13q33 | AA | ||||
| 13q34 | AA | ||||
|
| |||||
| 14q32 | ER-neg | TN | AA | AA | |
|
| |||||
| 15q12 | TN | AA | |||
| 15q21 | CA | ||||
| 15q22 | TN | AA | |||
| 15q24 | TN | AA | AA | ||
| 15q25 | TN | ||||
| 15q26 | TN | AA | |||
|
| |||||
| 16p13 | AA | ||||
| 16p13 | CA | ||||
| 16q12 | ER-pos | HER2 neg | AA | ||
| 16q12 | AA | ||||
| 16q13 | ER-pos | HER2 neg | |||
| 16q21 | ER-pos | non-TN | |||
| 16q22 | ER-pos | HER2 neg | non-TN | ||
| 16q23 | ER-pos | HER2 neg | non-TN | ||
| 16q24 | ER-pos | HER2 neg | non-TN | AA | |
|
| |||||
| 17q11 | HER2 pos | AA | |||
| 17q12 | HER2 pos | ||||
| 17q21 | HER2 pos | ||||
| 17q22 | HER2 pos | ||||
| 17q23 | HER2 pos | ||||
| 17q24 | HER2 pos | ||||
| 17q25 | HER2 pos | ||||
|
| |||||
| 18p11 | TN | CA | |||
| 18q23 | CA | ||||
|
| |||||
| 19p13 | CA | ||||
|
| |||||
| 20p11 | AA | ||||
| 20q12 | TN | ||||
| 20q13 | HER2 pos | ||||
|
| |||||
| 22q11 | AA | ||||
| 22q12 | AA | ||||
|
| |||||
| Xp22 | CA | ||||
| Xq13 | AA | ||||
*
Cytobands containing differential BAC clones with p-values <0.05 & weighted fraction difference ≥ 0.20 (with the exception of the race comparison in TN only)
**
Cytobands containing differential BAC clones with weighted fraction difference ≥ 0.20
Copy Number Loss
Copy Number Gain