Bidirectional promoters are the major source of gene activation-associated non-coding RNAs in mammals

BMC Genomics

Table 2 RPKM of the upstream and downstream regions of TSSs of genes belonging to each subgroup

Cerebral cortex	Upstream region		Downstream region
Cerebral cortex	Antisense RPKM	Sense RPKM	Antisense RPKM	Sense RPKM
Total genes	15.1	10.7	4.9	145.0
Top 100 ranked antisense RPKM located upstream^a	734.3	9.1	195.6	267.5
& Low antisense RPKM located downstream^b	427.5	5.9	22.8	181.5
& Middle antisense RPKM located downstream^b	165.0	2.2	56.4	74.9
& High antisense RPKM located downstream^b	141.8	1.0	116.4	11.1
Bottom 100 ranked antisense RPKM located upstream^c	0.0	9.0	0.4	88.0
Top 100 ranked sense RPKM located downstream^d	26.4	278.4	7.3	2054.4
Bottom 100 ranked sense RPKM located downstream^e	3.3	0.3	2.9	0.0

The values in this table are normalized by the number of genes.
^aThe genes with the top 100 ranked antisense RPKM in the upstream region of their TSSs.
^bThe values are divided into three groups. The genes whose antisense transcirpt expression level from the upstream region of the TSS was five times higher than that from the downstream region (Condition 1; Low antisense RPKM in downstream region). The genes whose antisense transcript expression level from the upstream region of the TSS was two times lower than that from the downstream region (Condition 2; High antisense RPKM in downstream region). The remaining genes (Middle antisense RPKM in downstream region).
^cThe genes with the bottom 100 ranked antisense RPKMs in the upstream region of their TSSs.
^dThe genes with the top 100 ranked sense RPKMs in the downstream region of their TSSs.
^eThe genes with the bottom 100 ranked antisense RPKMs in the downstream region of their TSSs.

ISSN: 1471-2164