Establishing the baseline level of repetitive element expression in the human cortex

BMC Genomics

Table 1 Significance Tests for Observed Repeat Element Transcription

Repeat Family	Fold Change	p-value	Adjusted for multiple comparisons p-value
Alu_SINE	0.8162648	0.00E+00	0.00E+00
ERV	1.626032	0.00E+00	0.00E+00
TcMar	1.1997436	3.18E-92	4.23E-92
hAT	0.8364789	2.42E-140	3.63E-140
DNA	0.4241692	8.22E-50	9.86E-50
L1	2.1400934	0.00E+00	0.00E+00
L2	0.769354	0.00E+00	0.00E+00
LTR	1.6255619	2.05E-06	2.05E-06
CR1	0.6404078	5.19E-201	1.04E-200
Satellite	2.8788933	2.78E-167	4.77E-167
MIR	0.4463942	0.00E+00	0.00E+00
Other	1.1499157	3.49E-35	3.81E-35

We compared our sequencing data to our simulated reads (simulated reads represent what is expected if repeat element transcription was merely at random) and tested for differential expression. The data was modeled using a negative binomial distribution. The fold changes were derived based on this model. Benjamini-Hochberg method was used to correct for multiple testing. P-values adjusted for multiple testing are shown in the last column.

ISSN: 1471-2164