Table 1 Differential expression analysis between control and LOXL2 knockdown of repetitive elements

From: LOXL2-mediated H3K4 oxidation reduces chromatin accessibility in triple-negative breast cancer cells

Locus

Ctrl_mean

Loxl2_mean

Prob

log2FC

Alu

3,601,718.96

3,714,313.36

1.00

0.04

RNA

2,918,334.55

3,045,475.41

0.99

0.06

L1

2,837,069.25

2,730,921.52

0.97

−0.06

ERV1

370,405.10

353,869.12

0.95

−0.07

TcMar-Tigger

239,662.63

252,421.97

0.87

0.07

UCON19

0.51

1.23

0.76

1.28

UCON18

0.51

1.23

0.76

1.28

hAT-Tip100

34,122.72

38,990.93

0.76

0.19

ERVK

8,958,641.10

9,448,789.20

0.76

0.08

MIR

673,530.34

692,895.61

0.76

0.04

hAT

12,908.30

16,757.15

0.76

0.38

TcMar-Mariner

33,897.47

38,475.09

0.75

0.18

UCON4

234.62

360.51

0.74

0.62

hAT-Charlie

374,265.61

380,188.93

0.72

0.02

UCON16

6.58

10.85

0.72

0.72

Penelope

7.08

11.83

0.70

0.74

ERVL-MaLR

399,009.16

406,080.51

0.70

0.03

UCON31

61.20

87.49

0.70

0.52

MER130

15.18

21.75

0.69

0.52

UCON2

320.19

434.63

0.69

0.44

UCON10

7.09

10.93

0.67

0.63

UCON28c

10.12

14.81

0.63

0.55

Eulor4

1.26

1.98

0.55

0.65

UCON12

14.14

4.94

0.52

−1.52

TcMar-Tc2

12,524.35

13,658.11

0.51

0.13

UCON24

1.27

0.49

0.47

−1.36

UCON17

3.03

1.23

0.46

−1.30

ERVL

174,857.94

177,852.71

0.44

0.02

MamRep605

7848.87

8610.92

0.41

0.13

UCON28a

201.88

253.61

0.39

0.33

Satellite

28,748.18

25,760.18

0.37

−0.16

UCON26

532.62

618.38

0.35

0.22

SVA_B

2696.77

3025.33

0.31

0.17

acro

14.16

10.88

0.30

−0.38

UCON11

6.08

3.93

0.29

−0.63

UCON15

4.29

2.25

0.29

−0.93

MuDR

1610.89

1799.90

0.28

0.16

SVA_F

3968.24

4322.50

0.26

0.12

Gypsy

18,034.32

16,836.16

0.26

−0.10

DNA

5850.42

6284.72

0.25

0.10

Dong-R4

3696.41

3198.15

0.25

−0.21

UCON9

18.69

12.78

0.24

−0.55

Centre

11,923.53

12,544.21

0.22

0.07

Merlin

297.42

327.87

0.19

0.14

SVA_D

11,475.76

11,978.90

0.19

0.06

UCON28b

26.33

30.80

0.18

0.23

LTR

1842.20

1987.87

0.18

0.11

UCON8

75.37

65.33

0.15

−0.21

TcMar

8328.59

8597.66

0.11

0.05

SVA_A

1741.04

1827.45

0.10

0.07

CR1

85,288.67

84,328.51

0.09

−0.02

Helitron

5017.41

5157.97

0.06

0.04

UCON6

1,277.83

1,325.68

0.06

0.05

RTE

30,497.19

29,901.20

0.06

−0.03

PiggyBac

4590.52

4349.34

0.06

−0.08

UCON22

12.14

10.47

0.06

−0.21

UCON5

11.14

9.87

0.06

−0.17

telo

489.07

507.40

0.05

0.05

L2

614,402.54

610,776.39

0.05

−0.01

Deu

2157.42

2220.57

0.05

0.04

hAT-Blackjack

11,106.77

11,287.96

0.05

0.02

UCON1

3.04

3.25

0.04

0.10

UCON27

72.82

74.65

0.03

0.04

UCON20

12.13

10.95

0.02

−0.15

MamRep564

756.04

712.80

0.02

−0.08

RTE-BovB

1064.66

1011.37

0.02

−0.07

ERV

440.91

422.61

0.01

−0.06

SINE

4912.94

4894.14

0.00

−0.01

UCON25

2.27

2.20

0.00

−0.04

SVA_E

1087.33

1076.64

0.00

−0.01