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Table 1 Total number of vlincRNAs and overlap with All promoters in different cell lines and tissues

From: VlincRNAs controlled by retroviral elements are a hallmark of pluripotency and cancer

Source

Cell line/Tissue

Cell Type

Number of vlincRNAs

VlincRNAs Overlapping with All Promoters

Overlap Expected by Chance

Fold over chance

p-value

Kapranov et al[12]

K562 + Ewing Sarcomas

Malignant

580

336*

131.7

2.5

2.4E-74

This work

Blood

Normal Tissue

613

321*

142.5

2.2

7.7E-55

ENCODE

K562

Malignant

407

216**

23.2

9.3

1.3E-153

ENCODE

HepG2

Malignant

501

192**

34.1

5.6

7.5E-91

ENCODE

HeLaS3

Malignant

206

N/D

N/D

N/D

N/D

ENCODE

GM12878

Immortalized

591

128**

27.5

4.6

3.6E-48

ENCODE

NHEK

Primary

248

51**

12.1

4.2

2.28 E-18

ENCODE

HUVEC

Primary

340

86**

13.1

6.5

1.9E-44

ENCODE

H1-hEsc

Embryonic Stem

469

205**

24.9

8.2

1.9E-130

This work

Mouse Lung

Normal Tissue

225

115*

49.3

2.3

7.6E-22

  1. * Overlap was done on combined ENCODE All promoter dataset from all 9 cell lines
  2. ** Overlap was done on the All ENCODE promoter dataset from the same cell line