Transcription signatures encoded by ultraconserved genomic regions in human prostate cancer

Table 3 ucRNA expression changes in LNCaP cells after treatment with R1881

ucRNA	Fold Change*	FDR (%)	P value^†	Type‡, host gene, host strand	Overlap with mRNA	Antisense to mRNA
uc.287+	1.83	7.8	0.034	p, no gene	Yes
uc.445 + A	1.44	28.8	0.042	n, no gene	No
uc.134+	1.39	28.8	0.029	n, RSRC1	Yes
uc.240+	1.37	28.8	0.019	n, no gene	Yes	Yes
uc.249 + A	0.80	13.7	0.026	n, no gene	No
uc.349+	0.78	13.1	0.021	n, DACH1, antisense	Yes	Yes
uc.204+	0.76	9.7	0.025	n, no gene	No
uc.135+	0.65	1.6	0.01	e, MECOM, antisense	Yes	Yes
uc.31+	0.61	1.6	0.025	p, no gene	Yes
uc.410 + A	0.58	0.0	0.022	n, no gene	No
uc.344+	0.57	0.0	0.037	e, HOXC5, sense	Yes	Yes
uc.283 + A	0.52	0.0	0.032	n, no gene	No
uc.283+	0.26	0.0	0.008	n, no gene	No

* Fold change: reference are the untreated cells (solvent only); †Cutoff for inclusion: P value (t-test) < 0.05 for all ucRNAs; ‡ Type is based on UCSC human genome data, UCSC version hg19, NCBI build 37 coordinates, where n = nonexonic, e = exonic, and p = possibly exonic.

ISSN: 1476-4598