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Table 2 Ranking of 50 breast cancer cell lines based on average Pearson’s correlation coefficient of their expression profiles with those of their respective subtype breast cancer tumour samples from The Cancer Genome Atlas

From: Assessing breast cancer cell lines as tumour models by comparison of mRNA expression profiles

Cell lines Mean correlation of expression profile to tumours PubMed citations, n
Luminal cell lines   
 BT483 0.5204 19
 ZR7530 0.5165 69
 600MPE 0.5137 20
 T47D 0.5028 3420
 MCF7 0.5016 25312
 ZR751 0.4974 914
 CAMA1 0.4892 47
 BT474 0.4852 891
 EFM192A 0.4837 2
 HCC1428 0.4773 8
 SUM225CWN 0.4772 11
 HCC1419 0.4733 3
 UACC812 0.4730 34
 HCC202 0.4680 2
 MDAMB361 0.4677 165
 ZR75B 0.4629 17
 EFM192B 0.4612 0
 EFM192C 0.4593 0
 MDAMB175VII 0.4568 21
 MDAMB134V1 0.4566 8
 LY2 0.4554 84
 HCC2218 0.4505 4
 SUM52PE 0.4480 19
 SKBR3 0.4456 1763
 MDAMB453 0.4447 391
 UACC893 0.4320 16
 AU565 0.4143 56
Basal cell lines
 HCC70 0.5756 34
 MX1 0.5745 23
 HCC3153 0.5634 4
 HCC1143 0.5502 14
 HCC1937 0.5491 145
 HCC1569 0.5429 8
 HCC1395 0.5276 7
 MB157 0.5260 60
 SUM149PT 0.5196 13
 HCC38 0.5167 27
 HCC1954 0.5165 50
 SUM229PE 0.5165 6
 HCC1599 0.5109 7
 HCC1806 0.5042 41
 21NT 0.4986 10
 21PT 0.4912 28
 MDAMB231 0.4871 8386
 21MT2 0.4833 8
 HS578T 0.4760 442
 21MT1 0.4742 10
 BT549 0.4700 259
 JIMT1 0.4528 71
 SUM1315 0.4184 26
  1. The 5000 most variable genes were used to compute the Pearson’s correlation of all the cell line–tumour and cell line–cell line pairs in a subtype-specific manner. The cell lines were ranked based on their average correlation with all tumours of their respective subtype. Claudin-low cell lines were compared with basal tumours, as the claudin-low subtype is not well represented in vivo