CpG islands’ clustering uncovers early development genes in the human genome | Zendy

Vladimir N. Babenko | Zendy; Anton Bogomolov | Zendy; Roman Babenko | Zendy; Elvira R. Galieva | Zendy; Yuriy L. Orlov | Zendy

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CpG islands’ clustering uncovers early development genes in the human genome

Author(s) -

Vladimir N. Babenko,

Anton Bogomolov,

Roman Babenko,

Elvira R. Galieva,

Yuriy L. Orlov

Publication year - 2018

Publication title -

computer science and information systems

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 0.244

H-Index - 24

eISSN - 2406-1018

pISSN - 1820-0214

DOI - 10.2298/csis170523004b

Subject(s) - cpg site , biology , genetics , gene , human genome , genome , chromatin , computational biology , dna methylation , gene expression

We address the problem of the annotation of CpG islands (CGIs) clusters in the human genome. Upon analyzing gene content within CGIs clusters, piRNA, tRNA, and miRNA-encoding genes were found as well as CpG-rich homeobox genes reported previously. Chromosome-wide CGI density is positively correlated with replication timing, confirming that CGIs may serve as open chromatin markers. Early embryonic stage expressed KRAB-ZNF genes abundant at chromosome 19 were found to be interlinked with CGI clusters. We detected that a number of long CGIs and CGI clusters are, in fact, tandem copies with multiple annotated macrosatellites and paralogous genes. This finding implies that tandem expansion of CGIs may serve as a substrate for nonhomologous recombination events.

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