A new technique for precisely and accurately measuring lumbar spine bone mineral density in mice using clinical dual energy X-ray absorptiometry (DXA)

Dual Energy X-ray Absorptiometry (DXA) is effective in measuring bone mineral density (BMD) in mice for early detection of osteoporosis. However, scanners designed for use with small animals (i.e. PIXImus) are very expensive. Used human DXA machines are cheaper to obtain, but analysis of scans from these instruments is operator-dependent. Obtaining reliable data depends on having a single operator analyze the scans in a blinded fashion. Scan quality is improved by excising the bone prior to scanning, which does not allow serial measurements. This study describes a novel method of analyzing lumbar spine BMD in mice using whole body DXA. This non-invasive technique has a high degree of precision and reproducibility, with good correlation between multiple observers. Inter-observer variability (0.063 ± 0.00317 g/cm2 [mean ± SD], 5.05 [% coefficient of variation (CV)], repeat scan variability (0.063 ± 0.00364 g/cm2 [mean ± SD], 5.94 [%CV]) were very low compared to variability between different animals (0.063 ± 0.00588 g/cm2 [mean ± SD], 9.64 [%CV]) and variability seen in same animal over time (0.011 ± 0.00885 g/cm2 [mean ± SD], 80.68 [%CV]). The measurement error is thus smaller than the biological variation. Accuracy was determined by comparing average peak BMD from two scans per mouse in-vivo (0.066 g/cm2) versus excised spine (0.065 g/cm2). Furthermore, correlation between bone ash weights and whole body lumbar spine BMD measurements (p < 0.0001) was highly significant. This technique thus shows a high degree of precision and accuracy, even with multiple observers, for measuring BMD in mice using a DXA machine designed for clinical use

Zeros and the functional equation of the quadrilateral zeta function

In this paper, we show that all real zeros of the bilateral Hurwitz zeta function $Z(s,a):=\zeta (s,a) + \zeta (s,1-a)$ with $1/4 \le a \le 1/2$ are on only the non-positive even integers exactly same as in the case of $(2^s-1) \zeta (s)$. We also prove that all real zeros of the bilateral periodic zeta function $P(s,a):={\rm{Li}}_s (e^{2\pi ia}) + {\rm{Li}}_s (e^{2\pi i(1-a)})$ with $1/4 \le a \le 1/2$ are on only the negative even integers just like $\zeta (s)$. Moreover, we show that all real zeros of the quadrilateral zeta function $Q(s,a):=Z(s,a) + P(s,a)$ with $1/4 \le a \le 1/2$ are on only the negative even integers. On the other hand, we prove that $Z(s,a)$, $P(s,a)$ and $Q(s,a)$ have at least one real zero in $(0,1)$ when $0<a<1/2$ is sufficiently small. The complex zeros of these zeta functions are also discussed when $1/4 \le a \le 1/2$ is rational or transcendental. As a corollary, we show that $Q(s,a)$ with rational $1/4 < a < 1/3$ or $1/3 < a < 1/2$ does not satisfy the analogue of the Riemann hypothesis even though $Q(s,a)$ satisfies the functional equation that appeared in Hamburger's or Hecke's theorem and all real zeros of $Q(s,a)$ are located at only the negative even integers again as in the case of $\zeta (s)$.Comment: 12 pages. We changed the title. Some typos are correcte

Inland wetlands mapping and vulnerability assessment using an integrated geographic information system and remote sensing techniques

The understanding of inland wetlands’ distribution and their level of vulnerability is important to enhance management and conservation efforts. The aim of the study was to map inland wetlands and assess their distribution pattern and vulnerability to natural and human disturbances such as climate change (temperature increase) and human activities by the year 2080. Inland wetland types i.e. forested/shrub, emergent and open water bodies were classified and mapped using maximum likelihood standard algorithm. The spatial distribution pattern of inland wetlands was examined using average nearest neighbor analysis. A weighted geospatial vulnerability analysis was developed using variables such as roads, land cover/ land use (developed and agricultural areas) and climate data (temperature) to predict potentially vulnerable inland wetland types. Inland wetlands were successfully classified and mapped with overall accuracy of about 73 percent. Clustered spatial distribution pattern was found among all inland wetland types with varied degree of clustering. The study found about 13 percent of open water bodies, 11 percent of forested/shrub and 7 percent of emergent wetlands potentially most vulnerable to human and natural stressors. This information could be used to improve wetland planning and management by wetland managers and other stakeholders

Prognostic value of prostate circulating cells detection in prostate cancer patients: a prospective study

In clinically organ-confined prostate cancer patients, bloodstream tumour cell dissemination generally occurs, and may be enhanced by surgical prostate manipulation. To evaluate cancer-cell seeding impact upon patient recurrence-free survival, 155 patients were prospectively enrolled then followed. Here, 57 patients presented blood prostate cell shedding preoperatively and intraoperatively (group I). Of the 98 preoperatively negative patients, 53 (54%) remained negative (group II) and 45 (46%) became intraoperatively positive (group III). Median biological and clinical recurrence-free time was far shorter in group I (36.2 months, P<0.0001) than in group II (69.6 months) but did not significantly differ in group II and III (69.6 months vs 65.0). Such 5-year follow-up data show that preoperative circulating prostate cells are an independent prognosis factor of recurrence. Moreover, tumour handling induces cancer-cell seeding but surgical blood dissemination does not accelerate cancer evolution

Continuity of transcriptomes among colorectal cancer subtypes based on meta-analysis

Background: Previous approaches to defining subtypes of colorectal carcinoma (CRC) and other cancers based on transcriptomes have assumed the existence of discrete subtypes. We analyze gene expression patterns of colorectal tumors from a large number of patients to test this assumption and propose an approach to identify potentially a continuum of subtypes that are present across independent studies and cohorts. Results: We examine the assumption of discrete CRC subtypes by integrating 18 published gene expression datasets and \u3e3700 patients, and contrary to previous reports, find no evidence to support the existence of discrete transcriptional subtypes. Using a meta-analysis approach to identify co-expression patterns present in multiple datasets, we identify and define robust, continuously varying subtype scores to represent CRC transcriptomes. The subtype scores are consistent with established subtypes (including microsatellite instability and previously proposed discrete transcriptome subtypes), but better represent overall transcriptional activity than do discrete subtypes. The scores are also better predictors of tumor location, stage, grade, and times of disease-free survival than discrete subtypes. Gene set enrichment analysis reveals that the subtype scores characterize T-cell function, inflammation response, and cyclin-dependent kinase regulation of DNA replication. Conclusions: We find no evidence to support discrete subtypes of the CRC transcriptome and instead propose two validated scores to better characterize a continuity of CRC transcriptomes

Meta-analysis of genome-wide association studies of asthma in ethnically diverse North American populations.

Asthma is a common disease with a complex risk architecture including both genetic and environmental factors. We performed a meta-analysis of North American genome-wide association studies of asthma in 5,416 individuals with asthma (cases) including individuals of European American, African American or African Caribbean, and Latino ancestry, with replication in an additional 12,649 individuals from the same ethnic groups. We identified five susceptibility loci. Four were at previously reported loci on 17q21, near IL1RL1, TSLP and IL33, but we report for the first time, to our knowledge, that these loci are associated with asthma risk in three ethnic groups. In addition, we identified a new asthma susceptibility locus at PYHIN1, with the association being specific to individuals of African descent (P = 3.9 × 10(-9)). These results suggest that some asthma susceptibility loci are robust to differences in ancestry when sufficiently large samples sizes are investigated, and that ancestry-specific associations also contribute to the complex genetic architecture of asthma

Impact of the spotted microarray preprocessing method on fold-change compression and variance stability

<p>Abstract</p> <p>Background</p> <p>The standard approach for preprocessing spotted microarray data is to subtract the local background intensity from the spot foreground intensity, to perform a log2 transformation and to normalize the data with a global median or a lowess normalization. Although well motivated, standard approaches for background correction and for transformation have been widely criticized because they produce high variance at low intensities. Whereas various alternatives to the standard background correction methods and to log2 transformation were proposed, impacts of both successive preprocessing steps were not compared in an objective way.</p> <p>Results</p> <p>In this study, we assessed the impact of eight preprocessing methods combining four background correction methods and two transformations (the log2 and the glog), by using data from the MAQC study. The current results indicate that most preprocessing methods produce fold-change compression at low intensities. Fold-change compression was minimized using the Standard and the Edwards background correction methods coupled with a log2 transformation. The drawback of both methods is a high variance at low intensities which consequently produced poor estimations of the p-values. On the other hand, effective stabilization of the variance as well as better estimations of the p-values were observed after the glog transformation.</p> <p>Conclusion</p> <p>As both fold-change magnitudes and p-values are important in the context of microarray class comparison studies, we therefore recommend to combine the Edwards correction with a hybrid transformation method that uses the log2 transformation to estimate fold-change magnitudes and the glog transformation to estimate p-values.</p