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Table 3 Genes differentially expressed between metaplastic breast cancer subtypes

From: Pathway activity profiling of growth factor receptor network and stemness pathways differentiates metaplastic breast cancer histological subtypes

Gene

Log2 Fold Change

p-value

FDR-adjusted p-value

Genes differentially expressed in Mesenchymal vs. all other MpBC types

 AQP5

10.36

< 2.22E-16

< 2.22E-16

 IL1A

−3.83

1.36E-11

2.28E-09

 EXTL1

9.07

6.84E-11

7.67E-09

 TNFRSF11B

5.02

1.36E-09

1.14E-07

 FGFBP2

6.91

2.22E-08

1.49E-06

 PSG5

−6.16

2.84E-08

1.59E-06

 CXCL5

−2.49

1.34E-07

6.43E-06

 CA6

21.62

2.11E-05

8.85E-04

 CCL2

−3.10

2.39E-05

8.92E-04

 IRF1

−2.48

8.46E-05

2.84E-03

 IFI35

−2.20

1.23E-04

3.76E-03

 STAT1

−1.98

4.09E-04

1.15E-02

 TYMP

−2.00

5.00E-04

1.29E-02

 EPSTI1

−2.51

6.65E-04

1.40E-02

 ICAM1

−2.42

6.29E-04

1.40E-02

 OAS3

−1.65

6.67E-04

1.40E-02

 BST2

−2.30

7.25E-04

1.43E-02

 ARC

2.43

9.32E-04

1.74E-02

 TAP1

−2.19

1.02E-03

1.81E-02

 SAMHD1

−1.76

2.34E-03

3.93E-02

 SYNGR1

1.30

2.82E-03

4.31E-02

 TNFRSF10B

−1.47

2.76E-03

4.31E-02

 CXCL11

−2.64

3.29E-03

4.60E-02

 STC1

−2.23

3.21E-03

4.60E-02

Genes differentially expressed in Spindle cell vs. all other MpBC types

 SPRR1A

−5.30

6.48E-13

2.18E-10

 SPRR2A

−3.67

3.28E-12

5.51E-10

 SPRR2D

−22.62

8.87E-12

9.94E-10

 AQP5

5.73

3.26E-11

2.74E-09

 EXTL1

2.98

6.86E-11

4.61E-09

 CXCL6

6.08

2.27E-09

1.27E-07

 LY6D

−1.56

2.75E-09

1.32E-07

 KRT4

−2.64

9.36E-09

3.93E-07

 TFPI2

2.98

1.17E-08

4.37E-07

 CXCL5

3.10

1.61E-07

5.41E-06

 NEFM

5.58

2.92E-05

8.92E-04

 IL1B

2.65

7.61E-05

2.13E-03

 MAOB

2.57

2.80E-04

7.25E-03

 FN1

1.66

4.80E-04

1.04E-02

 CCL2

1.53

4.94E-04

1.04E-02

 LEP

−21.29

4.51E-04

1.04E-02

 MMP9

2.92

5.87E-04

1.16E-02

 CXCL3

2.07

9.76E-04

1.64E-02

 HSPA6

1.31

9.46E-04

1.64E-02

 VIPR1

−2.30

9.44E-04

1.64E-02

 ROR1

1.08

2.21E-03

3.53E-02

 OXTR

1.66

2.39E-03

3.65E-02

 TNFRSF10D

1.62

2.60E-03

3.80E-02

 DKK1

2.42

3.30E-03

4.62E-02

Genes differentially expressed in Squamous vs. all other MpBC types

 AQP5

−24.83

< 2.22E-16

< 2.22E-16

 ELF5

−2.79

< 2.22E-16

< 2.22E-16

 SPRR1A

6.65

3.37E-12

3.77E-10

 SPRR2A

6.30

4.54E-12

3.81E-10

 TF

−3.00

1.90E-11

1.28E-09

 HSP90AA4P

−2.99

4.67E-11

2.62E-09

 CA6

−8.88

1.43E-10

6.87E-09

 EXTL1

−19.35

2.62E-10

1.10E-08

 PSG5

0.20

1.83E-09

6.84E-08

 GLYATL2

3.00

7.10E-09

2.39E-07

 PI3

5.49

7.14E-08

2.18E-06

 TCN1

3.97

3.25E-05

8.59E-04

 EPGN

2.68

3.32E-05

8.59E-04

 DHRS9

2.21

7.43E-05

1.78E-03

 SPRR2D

11.54

1.09E-04

2.44E-03

 SLC47A2

4.33

1.52E-04

3.19E-03

 DSCAM

−23.49

1.79E-04

3.53E-03

 ID4

−2.93

2.20E-04

4.11E-03

 ALDH3B2

3.18

2.89E-04

5.12E-03

 CITED1

3.80

3.23E-04

5.43E-03

 EEF1A2

3.03

4.19E-04

6.40E-03

 CCL20

2.22

4.13E-04

6.40E-03

 C12orf39

2.70

5.40E-04

7.89E-03

 STEAP4

2.28

6.83E-04

9.56E-03

 PPL

2.03

7.28E-04

9.79E-03

 NEFM

−5.96

9.26E-04

1.20E-02

 HAS2

−2.14

1.18E-03

1.47E-02

 LCE3D

4.05

1.26E-03

1.52E-02

 CDRT1

2.92

1.60E-03

1.85E-02

 PTHLH

2.48

1.74E-03

1.88E-02

 PRSS22

1.99

1.72E-03

1.88E-02

 ALDH1A1

1.67

2.01E-03

2.11E-02

 TNFAIP2

1.41

2.30E-03

2.35E-02

 LEP

8.40

2.94E-03

2.91E-02

 ELF3

2.34

4.25E-03

4.08E-02

 GRHL3

2.08

4.82E-03

4.50E-02

  1. MpBC metaplastic breast cancer. FDR: false discovery rate