Gene repositioning within the cell nucleus is not random and is determined by its genomic neighborhood

Table 1 Pearson’s correlation analysis of locus position and gene expression

Condition		Lower CI	Upper CI	R	p value
(A) Gene of interest
Differentiation	Locus–periphery	−1	0.2587	−0.3425	0.1663
Differentiation	Locus–chromocenter	−0.4619	1	0.121	0.3692
Ectopic	Locus–periphery	−1	0.1083	−0.556	0.07627
Ectopic	Locus–chromocenter	−0.0698	1	0.582	0.06501
(B) BAC (≈180 kbp)
Differentiation	Locus–periphery	−1	0.4907	−0.085	0.4082
Differentiation	Locus–chromocenter	−0.2949	1	0.307	0.1937
Ectopic	Locus–periphery	−1	0.3716	−0.227	0.2638
Ectopic	Locus–chromocenter	−0.2237	1	0.375	0.1429
(C) 2-Mbp region
Differentiation	Locus–periphery	−1	−0.0516	−0.587	0.0372
Differentiation	Locus–chromocenter	−0.2413	1	0.359	0.1543
Ectopic	Locus–periphery	−1	−0.1764	−0.723	0.0214
Ectopic	Locus–chromocenter	0.1386	1	0.704	0.0257
(D) 5-Mbp region
Differentiation	Locus–periphery	−1	0.2243	−0.374	0.1433
Differentiation	Locus–chromocenter	−1	0.5311	−0.030	0.4672
Ectopic	Locus–periphery	−1	0.317	−0.386	0.1724
Ectopic	Locus–chromocenter	−0.0235	1	0.459	0.1261

Differentiation and ectopic MeCP2 systems were analyzed relating normalized locus positions and maximum gene expression values (see Fig. 2). Different region sizes were analyzed: (A) single gene level; (B) BAC level, corresponding to an average of 180 kbp; (C) genomic 2-Mbp window; (D) genomic 5-Mbp window. Pearson’s coefficients (R) are given together with upper and lower confidence intervals (CI) and p values for each condition as indicated

ISSN: 1756-8935