BACKGROUND DNA methylation is involved in many gene functions such as gene-silencing, X-inactivation, imprinting and stability of the gene. We recently found that some CpG islands had a tissue-dependent and differentially methylated region (T-DMR) in normal tissues, raising the possibility that there may be more CpG islands capable of differential methylation. RESULTS We investigated the geno...

GC content has been shown to be an important aspect of human genomic function. Extending beyond the scope of GC content alone, there is a class of regions in the genome that have especially high GC content and are enriched for the CG dinucleotide--called CpG islands. CpG islands have been linked to biologically functional genomic elements. DNA structure also contributes to biological function. ...

In this paper, we use a statistical estimator developed in astrophysics to study the distribution and organization of features of the human genome. Using the human reference sequence we quantify the global distribution of CpG islands (CGI) in each chromosome and demonstrate that the organization of the CGI across a chromosome is non-random, exhibits surprisingly long range correlations (10 Mb) ...

By means of the nonlinear modelling technique, we find the nonlinear deterministic structures in the totally 4737 human promoter sequences. These deterministic structures prefer to occur much more outside of a special region around the transcriptional start site. The number and positions of the deterministic structures are basically different for different promoter sequences. Generally, they do...

A total of 11 5PM2.5 samples were collected for analyzing organic carbon (OC) and elemental carbon (EC) at Tuoji Island (TI), China from November 2011 to December 2012. The results showed that annual arithmetical means of OC and EC concentrations were 3.8 ± 2.7 and 2.2 ± 2.2 μg m(-3), which contributed 8% and 4% of PM2.5 mass concentrations, respectively. High EC concentrations occurred in wint...

A precise biological mechanism by which cadmium acts as a developmental toxicant is unknown but is suggested to include an epigenetic basis. In prior work, we analyzed CpG island methylation levels within gene promoters (n=16,421) in leukocytes collected from mothers and their infants from a pregnancy cohort in Durham County, North Carolina. The CpG methylation levels were examined in relations...

We consider several sequential processing algorithms for identifying genes in human DNA, based on detecting CpG islands. The algorithms are designed to capture the underlying statistical structure in a DNA sequence. Sequential processing using a Markov model and a hidden Markov model are shown to identify most CpG islands in annotated (marked) DNA subsequences in publicly available DNA data set...

How can flexible phasing be generated by a central pattern generator (CPG)? To address this question, we have extended an existing model of the leech heartbeat CPG's timing network to construct a model of the CPG core and explore how appropriate phasing is set up by parameter variation. Within the CPG, the phasing among premotor interneurons switches regularly between two well defined states - ...

Three new species of Nuuanu, N. quintalana sp. nov., N. stuckeyorun sp. nov. and N. titaseyi sp. nov. are described from Norfolk Island, Tasman Sea; Cocos (Keeling) Islands, Indian Ocean and the Torres Strait, Australia, respectively. There are currently 17 described species of Nuuanu with the genus distributed world-wide.

We have developed a relational database to contain whole genome sequence alignments between human and mouse with extensive annotations of the human sequence. Complex queries are supported on recorded features, both directly and on proximity among them. Searches can reveal a wide variety of relationships, such as finding all genes expressed in a designated tissue that have a highly conserved non...