57 research outputs found
Measure representation and multifractal analysis of complete genomes
This paper introduces the notion of measure representation of DNA sequences.
Spectral analysis and multifractal analysis are then performed on the measure
representations of a large number of complete genomes. The main aim of this
paper is to discuss the multifractal property of the measure representation and
the classification of bacteria. From the measure representations and the values
of the spectra and related curves, it is concluded that these
complete genomes are not random sequences. In fact, spectral analyses performed
indicate that these measure representations considered as time series, exhibit
strong long-range correlation. For substrings with length K=8, the
spectra of all organisms studied are multifractal-like and sufficiently smooth
for the curves to be meaningful. The curves of all bacteria
resemble a classical phase transition at a critical point. But the 'analogous'
phase transitions of chromosomes of non-bacteria organisms are different. Apart
from Chromosome 1 of {\it C. elegans}, they exhibit the shape of double-peaked
specific heat function.Comment: 12 pages with 9 figures and 1 tabl
Imaging of inflammatory cellular protagonists in human atherosclerosis: a dual-isotope SPECT approach
Purpose: Atherosclerotic plaque development and progression signifies a complex inflammatory disease mediated by a multitude of proinflammatory leukocyte subsets. Using single photon emission computed tomography (SPECT) coupled with computed tomography (CT), this study tested a new dual-isotop
RANTES/CCL5 and risk for coronary events: Results from the MONICA/KORA Augsburg case-cohort, Athero-express and CARDIoGRAM studies
Background: The chemokine RANTES (regulated on activation, normal T-cell expressed and secreted)/CCL5 is involved in the pathogenesis of cardiovascular disease in mice, whereas less is known in humans. We hypothesised that its relevance for atherosclerosis should be reflected by associations between CCL5 gene variants, RANTES serum concentrations and protein levels in atherosclerotic plaques and risk for coronary events. Methods and Findings: We conducted a case-cohort study within the population-based MONICA/KORA Augsburg studies. Baseline RANTES serum levels were measured in 363 individuals with incident coronary events and 1,908 non-cases (mean follow-up: 10.2±
Fine-Scale Mapping of the 4q24 Locus Identifies Two Independent Loci Associated with Breast Cancer Risk
Background: A recent association study identified a common variant (rs9790517) at 4q24 to be associated with breast cancer risk. Independent association signals and potential functional variants in this locus have not been explored.
Methods: We conducted a fine-mapping analysis in 55,540 breast cancer cases and 51,168 controls from the Breast Cancer Association Consortium.
Results: Conditional analyses identified two independent association signals among women of European ancestry, represented by rs9790517 [conditional P = 2.51 × 10−4; OR, 1.04; 95% confidence interval (CI), 1.02–1.07] and rs77928427 (P = 1.86 × 10−4; OR, 1.04; 95% CI, 1.02–1.07). Functional annotation using data from the Encyclopedia of DNA Elements (ENCODE) project revealed two putative functional variants, rs62331150 and rs73838678 in linkage disequilibrium (LD) with rs9790517 (r2 ≥ 0.90) residing in the active promoter or enhancer, respectively, of the nearest gene, TET2. Both variants are located in DNase I hypersensitivity and transcription factor–binding sites. Using data from both The Cancer Genome Atlas (TCGA) and Molecular Taxonomy of Breast Cancer International Consortium (METABRIC), we showed that rs62331150 was associated with level of expression of TET2 in breast normal and tumor tissue.
Conclusion: Our study identified two independent association signals at 4q24 in relation to breast cancer risk and suggested that observed association in this locus may be mediated through the regulation of TET2.
Impact: Fine-mapping study with large sample size warranted for identification of independent loci for breast cancer risk
Multiple substitution of protons by sodium ions in sodiated oligoglycines
Multiply-sodiated ions were observed by electrospraying oligoglycines and their N-acetylated and O-amidated derivatives in the presence of sodium hydroxide. These ions have all their hydrogens in the peptide linkages replaced by sodiums; one hydrogen in the C-terminal amide and the hydrogen in the C-terminal carboxylic group are also replaced. The N-terminal amine hydrogens are unreactive. These results are consistent with earlier postulations [Int. J. Mass Spectrom. 192 (1999) 303, J. Am. Soc. Mass Spectrom. 11 (2000) 967], and apparently confirm the gas-phase origin of these ions (formed in the electrospray source and/or the lens region). Collision-induced dissociation of multiply-sodiated oligo
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