Allele-specific disparity in breast cancer

BMC Medical Genomics

Table 3 Clinical features

Grade
Status	Grade I	Grade II	Grade III
Disparity (96273 loci)	79120 (5.9%)	485506 (9.3%)	494383 (12.6%)
No Disparity (96273 loci)	1268281 (94.1%)	4711144 (90.7%)	3451422 (87.4%)
Total	1347401 (100%)	5196650 (100%)	3945805 (100%)
p-value < 0.001, (Cochran-Armitage trend test = X-squared = 68885.98, df = 1)
ER
Status	ER = neg	ER = pos
Disparity (96273 loci)	471696 (11.7%)	611716 (9.3%)
No Disparity(96273 loci)	3570454 (88.3%)	5932211 (90.7%)
Total	4042150 (100%)	6543927 (100%)
p-value < 0.001, (Pearson's Chi-squared test, X-squared = 14659.47, df = 1)
HER2
Status	HER2 = neg	HER2 = pos
Disparity (96273 loci)	820891 (10.4%)	191389 (9.9%)
No Disparity(96273 loci)	7070289 (89.6%)	1733669 (90.1%)
Total	7891180 (100%)	1925058 (100%)
p-value < 0.001, (Pearson's Chi-squared test, X-squared = 14659.47, df = 1)
TP53
Status	TP53 = wildtype	TP53 = mutate
Disparity (96273 loci)	607219 (8.2%)	483065 (14.3%)
No Disparity(96273 loci)	6802862 (91.8%)	2885412 (85.7%)
total	7410081 (100%)	3368477 (100%)
p-value < 0.001, (Pearson's Chi-squared test, X-squared = 96216.44, df = 1)
PR
Status	PR = neg	PR = pos
Disparity (96273 loci)	659139 (12%)	409458 (8.2%)
No Disparity(96273 loci)	4826429 (88%)	4594835 (91.8%)
Total	5485568 (100%)	5004293 (100%)
p-value < 0.001, (Pearson's Chi-squared test, X-squared = 42038.96, df = 1)

Distribution of the samples according to the clinical features such as grade, tumour size, ER, PR, HER2 status, breast cancer subtypes, and TP53 mutation status between the SNPs showing disparity and those not showing disparity.

ISSN: 1755-8794