Table 3 Differential co-expression of lncRNAs and mRNAs by conventional approach.

From: Tissue-specific Co-expression of Long Non-coding and Coding RNAs Associated with Breast Cancer

lncRNA ID

lncRNA Name

lncRNA Chromosome

mRNA ID

mRNA Chromosome

β_ Tumora

β_ Normala

log2FC (lncRNA) b

log2FC (mRNA) b

ENSG00000263069.1

CTD-2047H16.4

17

CETN2

X

9.60

5.06

1.01

1.11

ENSG00000215386.6

LINC00478

21

CETN2

X

0.98

3.19

−1.69

1.11

ENSG00000267078.1

RP11-666A8.9

17

EPPK1

8

−0.63

2.99

1.37

2.09

ENSG00000253187.2

HOXA-AS4

7

FAM89A

1

−4.36

−2.48

−2.32

−2.89

ENSG00000229970.2

AC007128.1

7

KIAA1724

2

−3.47

−5.69

3.09

1.07

ENSG00000261716.1

RP11-196G18.22

1

RP11-426E5.2

10

−0.06

−7.32

1.22

−4.90

ENSG00000261716.1

RP11-196G18.22

1

ST6GALNAC3

1

0.43

−4.40

1.22

−1.91

ENSG00000253187.2

HOXA-AS4

7

ST6GALNAC6

9

−0.38

1.84

−2.32

−1.04

  1. aβ refers to the change of mRNA expression level corresponding to each unit increase of lncRNA expression level in tumor and normal breast tissue, respectively, which was estimated from generalized linear model 2.
  2. bFC refers to the fold change of expression level in breast tumor versus normal tissue for mRNAs and lncRNAs, respectively.
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