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Expected Range (expected + range)
Selected AbstractsCandidate-gene association studies with pedigree data: Controlling for environmental covariatesGENETIC EPIDEMIOLOGY, Issue 4 2003S.L. Slager Abstract Case-control studies provide an important epidemiological tool to evaluate candidate genes. There are many different study designs available. We focus on a more recently proposed design, which we call a multiplex case-control (MCC) design. This design compares allele frequencies between related cases, each of whom are sampled from multiplex families, and unrelated controls. Since within-family genotype correlations will exist, statistical methods will need to take this into account. Moreover, there is a need to develop methods to simultaneously control for potential confounders in the analysis. Generalized estimating equations (GEE) are one approach to analyze this type of data; however, this approach can have singularity problems when estimating the correlation matrix. To allow for modeling of other covariates, we extend our previously developed method to a more general model-based approach. Our proposed methods use the score statistic, derived from a composite likelihood. We propose three different approaches to estimate the variance of this statistic. Under random ascertainment of pedigrees, score tests have correct type I error rates; however, pedigrees are not randomly ascertained. Thus, through simulations, we test the validity and power of the score tests under different ascertainment schemes, and an illustration of our methods, applied to data from a prostate cancer study, is presented. We find that our robust score statistic has estimated type I error rates within the expected range for all situations we considered whereas the other two statistics have inflated type I error rates under nonrandom ascertainment schemes. We also find GEE to fail at least 5% of the time for each simulation configuration; at times, the failure rate reaches above 80%. In summary, our robust method may be the only current regression analysis method available for MCC data. Genet Epidemiol 24:273,283, 2003. © 2003 Wiley-Liss, Inc. [source] Length,weight relationships for selected fish species from three eastern Adriatic estuarine systems (Croatia)JOURNAL OF APPLIED ICHTHYOLOGY, Issue 4 2006J. Dul Summary Length,weight relationships are presented for fish species from three eastern Adriatic estuarine systems (Croatian waters). The values of the parameter b mostly remained within the expected range of 2.5,3.5. No information regarding the length,weight relationship previously existed for 11 of the species. [source] Experimental vertical transmission of Macrobrachium rosenbergii nodavirus (MrNV) and extra small virus (XSV) from brooders to progeny in Macrobrachium rosenbergii and ArtemiaJOURNAL OF FISH DISEASES, Issue 1 2007R Sudhakaran Abstract White tail disease (WTD) is a serious problem in hatcheries and nursery ponds of Macrobrachium rosenbergii in India. Experiments were carried out to determine the possibility of vertical transmission of M. rosenbergii nodavirus (MrNV) and extra small virus (XSV) in M. rosenbergii and Artemia. Prawn broodstock inoculated with MrNV and XSV by oral or immersion challenge survived without any clinical signs of WTD. The brooders spawned 5,7 days after inoculation and the eggs hatched. The survival rate of larvae gradually decreased, and 100% mortality was observed at the post-larvae (PL) stage. Whitish muscle, the typical sign of WTD, was seen in advanced larval developmental stages. The ovarian tissue and fertilized eggs were found to be positive for MrNV/XSV by reverse transcriptase-polymerase chain reaction (RT-PCR) whereas the larval stages showed positive by RT nested PCR (nRT-PCR). In Artemia, reproductive cysts and nauplii derived from challenged brooders were normal and survival rates were within the expected range for normal rearing conditions. The reproductive cysts were found to be positive for MrNV/XSV by RT-PCR whereas the nauplii showed MrNV/XSV-positive by nRT-PCR. The PL of M. rosenbergii fed nauplii derived from challenged Artemia brooders died at 9 days post-inoculum with clinical signs of WTD. [source] Bed Stability and Sedimentation Associated With Human Disturbances in Pacific Northwest Streams,JOURNAL OF THE AMERICAN WATER RESOURCES ASSOCIATION, Issue 2 2009Philip R. Kaufmann Abstract:, To evaluate anthropogenic sedimentation in United States (U.S.) Pacific Northwest coastal streams, we applied an index of relative bed stability (LRBS*) to summer low flow survey data collected using the U.S. Environmental Protection Agency's Environmental Monitoring and Assessment Program field methods in a probability sample of 101 wadeable stream reaches. LRBS* is the log of the ratio of bed surface geometric mean particle diameter (Dgm) to critical diameter (D*cbf) at bankfull flow, based on a modified Shield's criterion for incipient motion. We used a formulation of LRBS* that explicitly accounts for reductions in bed shear stress that result from channel form roughness due to pools and wood. LRBS* ranged from ,1.9 to +0.5 in streams within the lower quartile of human riparian and basin disturbance, and was substantially lower (,4.2 to ,1.1) in streams within the upper quartile of human disturbance. Modeling results suggest that the expected range of LRBS* in streams without human disturbances in this region might be generally between ,0.7 and +0.5 in either sedimentary or volcanic lithology. However, streams draining relatively soft, erodible sedimentary lithology showed greater reductions in LRBS* associated with disturbance than did those having harder, more resistant volcanic (basalt) lithology with similar levels of basin and riparian disturbance. At any given level of disturbance, smaller streams had lower LRBS* than those with larger drainages. In sedimentary lithology (sandstone and siltstone), high-gradient streams had higher LRBS* than did low-gradient streams of the same size and level of human disturbance. High gradient streams in volcanic lithology, in contrast, had lower LRBS* than low-gradient streams of similar size and disturbance. Correlations between Dgm and land disturbance were stronger than those observed between D*cbf and land disturbance. This pattern suggests that land use has augmented sediment supplies and increased streambed fine sediments in the most disturbed streams. However, we also show evidence that some of the apparent reductions in LRBS*, particularly in steep streams draining small volcanic drainages, may have resulted in part from anthropogenic increases in bed shear stress. The synoptic survey methods and designs we use appear adequate to evaluate regional patterns in bed stability and sedimentation and their general relationship to human disturbances. More precise field measurements of channel slope, cross-section geometry, and bed surface particle size would be required to use LRBS* in applications requiring a higher degree of accuracy and precision, such as site-specific assessments at individual streams. [source] Spectacular fall of the Kendrapara H5 chondriteMETEORITICS & PLANETARY SCIENCE, Issue S8 2004D. Dhingra In a rare observation, the fireball was seen by two airline pilots, providing direction of the trail with reasonable accuracy, consistent with ground-based observations. A few fragments of the meteorite were subsequently recovered along the end of the trail in different parts of Kendrapara district (20°30, N; 86°26, E) of Orissa. Based on petrography and chemical composition, the meteorite is classified as H5 chondrite. The cosmogenic radionuclides54Mn,22Na,60Co, and26Al and tracks have been studied in this stony meteorite. Two of the fragments show an unusually high activity of60Co (,160 dpm/kg) indicating a meteoroid radius of 50,150 cm. Assuming that less than 10% (by weight) of the fragments could be recovered because of difficult terrain, an atmospheric mass ablation of >95% is estimated. Based on the observations of the trail and the estimated mass ablation, orbital parameters of the meteoroid have been calculated. The aphelion is found to lie in the asteroidal belt (1.8,2.4 AU), but the inclination of the orbit is large (22°,26°) with respect to the ecliptic. Noble gases have been analysed in two samples of this meteorite. He and Ne are dominantly cosmogenic. Using production rates based on the sample depth derived from60Co content,21Ne-based exposure age of 4.50 ± 0.45 Ma is derived for Kendrapara. One of the samples, known to be more deeply shielded based on high60Co activity, shows the presence of80Kr,82Kr, and128Xe produced by (n, ,) reaction on79Br,81Br, and127I, respectively. The (80Kr/82Kr)n ratio of 3.5 ± 0.9 is consistent with neutrons being mostly thermal. Trapped84Kr and132Xe are in the expected range for metamorphic grade H5. [source] Estimating Human Inbreeding Coefficients: Comparison of Genealogical and Marker Heterozygosity ApproachesANNALS OF HUMAN GENETICS, Issue 5 2006A. D. Carothers Summary We have used genealogies and genomic polymorphisms to estimate individual inbreeding coefficients (F) in 50 subjects with an expected range (based on recent genealogies) of F from 0.0 to 0.0625. The estimates were based on two approaches, using genotypes respectively from 410 microsatellite markers (410-STR panel) and from 10,000 SNPs (10K-SNP panel). The latter was performed in a sub-sample of 15 individuals. We concluded that for both marker panels measures of inbreeding based on the excess of homozygosity over Hardy-Weinberg expectation were not closely correlated with 4-5 generation genealogical F- values. For the 10K-SNP panel we found two alternative measures which correlated more closely with F, based respectively on standard errors and on paired homozygosity of nearby SNPs over distances of 2-4 cM. We propose an empirical method for estimating standard errors and hence individual F- values, based on the variation between individual autosomes. This method could provide useful estimates of average F- values for groups of individuals in population-based studies of the effects of inbreeding/homozygosity on quantitative traits. [source] Detection and correction of underassigned rotational symmetry prior to structure depositionACTA CRYSTALLOGRAPHICA SECTION D, Issue 5 2010Billy K. Poon Up to 2% of X-ray structures in the Protein Data Bank (PDB) potentially fit into a higher symmetry space group. Redundant protein chains in these structures can be made compatible with exact crystallographic symmetry with minimal atomic movements that are smaller than the expected range of coordinate uncertainty. The incidence of problem cases is somewhat difficult to define precisely, as there is no clear line between underassigned symmetry, in which the subunit differences are unsupported by the data, and pseudosymmetry, in which the subunit differences rest on small but significant intensity differences in the diffraction pattern. To help catch symmetry-assignment problems in the future, it is useful to add a validation step that operates on the refined coordinates just prior to structure deposition. If redundant symmetry-related chains can be removed at this stage, the resulting model (in a higher symmetry space group) can readily serve as an isomorphous replacement starting point for re-refinement using re-indexed and re-integrated raw data. These ideas are implemented in new software tools available at http://cci.lbl.gov/labelit. [source] Modeling of transmitted X-ray intensity variation with sample thickness and solid fraction in glycine compactsJOURNAL OF PHARMACEUTICAL SCIENCES, Issue 12 2003Wenjin Cao Abstract The previous paper in this series introduced an X-ray diffraction quantitation method for the polymorphic content in tablets made of pure components. Before the method could be transferred, further studies were required to explain the commonly observed X-ray intensity variation in analyzing compacts. The literature typically attributes the variation to partial amorphization under compression and/or to preferred orientation, without much viable explanation or compelling evidence. In this study, changes in intensity in compacts analyzed in transmission geometry were found to be primarily a function of sample thickness and solid fraction. A theoretical model was developed to describe the X-ray powder diffraction (XRPD) intensity as a function of solid fraction, mass absorption coefficient, and thickness. The model was tested on two sets of glycine compacts: one with varying thickness at constant solid fraction, and the other with various solid fractions at a given thickness. The results show that the model predicts the XRPD intensity at any given sample thickness and solid fraction. With this model, the intensity variation of compacts made under different compression conditions can be normalized, making the method transferable to various tablet geometries and facilitating the analysis over expected ranges of formulation and process variation. © 2003 Wiley-Liss, Inc. and the American Pharmacists Association J Pharm Sci 92:2345,2353, 2003 [source] (5S)-3-Oxo-4-oxa- endo -tricyclo[5.2.1.02,6]dec-8-en-5-yl acetateACTA CRYSTALLOGRAPHICA SECTION C, Issue 10 2000Dianne D. Ellis The molecular structure of C11H12O4, based on a norbornene core, was established to confirm the configuration of an acetoxy side-chain group in addition to the formation of the endo product. The acetoxy side chain lies in an axial position relative to the five-membered fused ring. Bond distances and angles show no unusual features, with all geometric parameters lying within their expected ranges. The overall stereochemistry of the molecule was ascertained from the chiral furanone starting material. [source] |