Improved Methodology for Assessment of mRNA Levels in Blood of Patients with FMR1 Related Disorders

BMC Clinical Pathology

Table 2 Correlation of RNA degradation time with capillary electrophoresis features and mRNA quantities

RNA feature	Predominant size of RNA detected and amplicon length (for mRNA only)	0 to 18 hours comparison p values	0 to 24 hours comparison p values	0 to 96 hours comparison p values	Combined comparison p values
18S % of total area (n = 53)	1700 bp	0.001***	0.001***	0.001***	0.001***
28S % of total area (n = 53)	3770 bp	0.001***	0.001***	0.001***	0.001***
5S % of total area (n = 53)	160 bp	0.043**	0.001***	0.386	0.001***
Fast region % of total area (n = 53)	____	0.717	0.92	0.001***	0.001***
Inter-peak region % of total area (n = 53)	____	0.001***	0.001***	0.001***	0.001***
Post region % of total area (n = 53)	____	0.36	0.16	0.316	0.42
Lower Marker % of total area (n = 53)	____	0.256	0.322	0.072*	0.001***
Small fragmentation region % of total area (n = 53)	____	0.12	0.046**	0.074*	0.026**
28S:18S ratio (n = 53)	____	0.553	0.082*	0.001***	0.001***
RQI	____	0.223	0.024**	0.001***	0.001***
DNMT1 mRNA (au) (n = 41)	5084 bp – 142 bp	0.173	0.006**	0.004**	0.001***
FMR1ex.3.4 mRNA (au) (n = 43)	4350 bp – 122 bp	0.265	0.001***	0.001***	0.003**
FMR1ex13.14 mRNA (au) (n = 43)	4350 bp – 89 bp	0.024**	0.013**	0.012**	0.001***
GUS mRNA (au) (n = 52)	2200 bp – 80 bp	0.169	0.001***	0.001***	0.001***
B2M mRNA (au) (n = 35)	976 bp – 114 bpo	0.093*	0.13	0.571	0.01**
GAPDH mRNA (au) (n = 52)	1310 bp – 110 bp	0.117	0.001***	0.001***	0.001***

*Generalized estimating equations (GEE) were used. Data from samples with different levels of total RNA degradation (early, moderate, high) are shown as the p-values of the chi square test (p < 0.1*; p < 0.05**; p < 0.001***) and the sample size (n).

ISSN: 1472-6890