Integrated analysis of lncRNA, miRNA and mRNA profiles reveals potential lncRNA functions during early HIV infection

Table 1 Several potential cis-regulatory DE lncRNA-mRNA pairs

Category^a	lncRNA	Log2 (fold change)	P value	mRNA	Log2 (fold change)	P value
Exon sense-overlapping	ENST00000594721^b	1.264	0.003	FCAR	1.259	< 0.001
Exon sense-overlapping	uc003niu.1^c	1.061	0.021	HIST1H2BJ	1.350	0.001
Bidirectional	ENST00000602478^b	2.878	< 0.001	CYB5R3	1.128	0.011
Bidirectional	ENST00000564481^b	− 1.533	0.015	AP3M2	− 1.212	0.002
Bidirectional	ENST00000566814^b	− 1.444	0.013	SEZ6L	− 1.288	0.010
Intergenic	ENST00000456129^b	− 1.721	0.002	SEZ6L	− 1.288	0.010
Intergenic	ENST00000423278^b	− 1.416	< 0.001	SEZ6L	− 1.288	0.010
Intergenic	ENST00000430080^b	− 1.392	0.010	SEZ6L	− 1.288	0.010
Intergenic	ENST00000364880^b	3.576	0.036	GRAP	− 1.276	< 0.001
Intergenic	ENST00000571722^b	2.358	0.001	GRAP	− 1.276	< 0.001
Intergenic	ENST00000577988^b	2.376	0.023	GRAP	− 1.276	< 0.001
Intergenic	ENST00000492960^b	− 2.152	< 0.001	ZAP70	− 1.275	< 0.001
Intergenic	TCONS_00006930^d	− 1.030	0.010	BTLA	− 1.209	0.007

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