Table 4.

Data from ENCODE [10] with respect to molecularly mapped common fragile sites (CFSs) from Table 3

Name	CTCF bs (count)	CTCF bs (%)	CTCF bs/kbp	H3K27ac	99-way cons. score
FRA1E	97	0.002	0.261	1.32	0.133
FRA1H	17,338	0.372	1.631	3.07	–
FRA2Ctel	700	0.015	0.938	2.53	0.071
FRA2Ccen	1,108	0.024	1.486	1.56	0.111
FRA2G	1,501	0.032	1.698	4.22	0.114
FRA2H	132	0.003	0.255	1.44	0.103
FRA3B	4,156	0.089	0.982	1.57	0.105
FRA4F	4,765	0.102	0.671	1.63	0.085
FRA6H	33,735	0.724	3.607	8.14	0.12
FRA6F	2,104	0.045	2.123	2.93	0.126
FRA6E	6,274	0.135	1.081	2.47	0.062
FRA7B	23,331	0.5	1.907	3.13	–
FRA7E	4,253	0.091	0.961	1.6	0.082
FRA7K	265	0.006	0.709	2.56	0.097
FRA7G	265	0.006	1.489	2.46	0.098
FRA7H	1,458	0.031	3.283	4.38	0.089
FRA7I	435	0.009	0.3	1.98	0.065
FRA8C	8,599	0.184	2.079	3.26	0.082
FRA9G	168	0.004	0.455	1.2	0.142
FRA10F	5,878	0.126	2.051	2.57	0.071
FRA11E	4,494	0.096	2.314	4.05	0.123
FRA11G	9,545	0.205	2.136	2.57	0.126
FRA13A	193	0.004	0.302	1.23	0.108
FRA13E	2,950	0.063	0.951	1.78	0.104
FRA16D	378	0.008	1.215	1.87	0.118
FRAXB	718	0.015	0.753	1.54	0.056

CTCF binding sites, studied in 89 cell lines, are shown respectively as absolute counts, with respect to the total number of CTCF binding sites in the whole genome and as a frequency per kb. Average H3k27 acetylation scores from ChIP-seq analysis of the K562 cell line have been calculated for each fragile site. Average conservation score between human and 99 vertebrates was obtained from the UCSC browser (http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=cons100way). We compiled a list of molecularly mapped CFSs by performing a systematic search of the literature for each one of the known cytogenetically mapped CFSs (n = 125). Twenty-six CFSs with a precise mapping were identified (see Table 3), and their coordinates were then mapped to the reference genome version GRC37. Whenever the precise location of BACs was unknown, it was verified by alignment with NCBI Megablast (default settings). The annotation of the reference human genome was obtained from UCSC (URL: hgdownload.cse.ucsc.edu/goldenPath/hg19/) in December 2013. The utility “bigWigSummary” was used to extract mean scores for molecularly mapped fragile regions and randomly selected non-fragile control regions