A study in the determination of quality/value relationships in rice (NRI Bulletin 55)

Econometric approaches to the valuation of a food product based on the implicit values of its individual quality attributes are a relatively recent development. Whilst such approaches have been used to explain and quantify consumer preferences at different market levels and in different countries, they offer considerable potential for storage enterprises. Armed with a knowledge of the financial significance of individual quality attribute changes over predicted storage periods, the enterprise can select a technology package which minimizes the most significant of those changes for a given commodity. A methodology for such an approach, based on a Natural Resources Institute case study in Indonesia, is described

Using cascading Bloom filters to improve the memory usage for de Brujin graphs

De Brujin graphs are widely used in bioinformatics for processing next-generation sequencing data. Due to a very large size of NGS datasets, it is essential to represent de Bruijn graphs compactly, and several approaches to this problem have been proposed recently. In this work, we show how to reduce the memory required by the algorithm of [3] that represents de Brujin graphs using Bloom filters. Our method requires 30% to 40% less memory with respect to the method of [3], with insignificant impact to construction time. At the same time, our experiments showed a better query time compared to [3]. This is, to our knowledge, the best practical representation for de Bruijn graphs.Comment: 12 pages, submitte

True and intentionally fabricated memories

The aim of the experiment reported here was to investigate the processes underlying the construction of truthful and deliberately fabricated memories. Properties of memories created to be intentionally false - fabricated memories - were compared to properties of memories believed to be true - true memories. Participants recalled and then wrote or spoke true memories and fabricated memories of everyday events. It was found that true memories were reliably more vivid than fabricated memories and were nearly always recalled from a first person perspective. In contrast, fabricated differed from true memories in that they were judged to be reliably older, were more frequently recalled from a third person perspective, and linguistic analysis revealed that they required more cognitive effort to generate. No notable differences were found across modality of reporting. Finally, it was found that, intentionally fabricated memories were created by recalling and then ‘editing’ true memories. Overall, these findings show that true and fabricated memories systematically differ, despite the fact that both are based on true memories

Melanoma molecular subtypes: Unifying and paradoxical results

In this issue, Hacker and colleagues provide further evidence that molecular subtypes of malignant melanoma may develop along divergent pathways. The authors did not find an association between somatic BRAF-mutant melanoma and germline melanocortin-1 receptor (MC1R) gene status. We discuss this seeming paradox in light of previous studies demonstrating strong associations

Quantum dynamics in high codimension tilings: from quasiperiodicity to disorder

We analyze the spreading of wavepackets in two-dimensional quasiperiodic and random tilings as a function of their codimension, i.e. of their topological complexity. In the quasiperiodic case, we show that the diffusion exponent that characterizes the propagation decreases when the codimension increases and goes to 1/2 in the high codimension limit. By constrast, the exponent for the random tilings is independent of their codimension and also equals 1/2. This shows that, in high codimension, the quasiperiodicity is irrelevant and that the topological disorder leads in every case, to a diffusive regime, at least in the time scale investigated here.Comment: 4 pages, 5 EPS figure

The position of graptolites within Lower Palaeozoic planktic ecosystems.

An integrated approach has been used to assess the palaeoecology of graptolites both as a discrete group and also as a part of the biota present within Ordovician and Silurian planktic realms. Study of the functional morphology of graptolites and comparisons with recent ecological analogues demonstrates that graptolites most probably filled a variety of niches as primary consumers, with modes of life related to the colony morphotype. Graptolite coloniality was extremely ordered, lacking any close morphological analogues in Recent faunas. To obtain maximum functional efficiency, graptolites would have needed varying degrees of coordinated automobility. A change in lifestyle related to ontogenetic changes was prevalent within many graptolite groups. Differing lifestyle was reflected by differing reproductive strategies, with synrhabdosomes most likely being a method for rapid asexual reproduction. Direct evidence in the form of graptolithophage 'coprolitic' bodies, as well as indirect evidence in the form of probable defensive adaptations, indicate that graptolites comprised a food item for a variety of predators. Graptolites were also hosts to a variety of parasitic organisms and provided an important nutrient source for scavenging organisms

Identification of a Robust Methylation Classifier for Cutaneous Melanoma Diagnosis

Early diagnosis improves melanoma survival, yet the histopathological diagnosis of cutaneous primary melanoma can be challenging, even for expert dermatopathologists. Analysis of epigenetic alterations, such as DNA methylation, that occur in melanoma can aid in its early diagnosis. Using a genome-wide methylation screening, we assessed CpG methylation in a diverse set of 89 primary invasive melanomas, 73 nevi, and 41 melanocytic proliferations of uncertain malignant potential, classified based on interobserver review by dermatopathologists. Melanomas and nevi were split into training and validation sets. Predictive modeling in the training set using ElasticNet identified a 40-CpG classifier distinguishing 60 melanomas from 48 nevi. High diagnostic accuracy (area under the receiver operator characteristic curve = 0.996, sensitivity = 96.6%, and specificity = 100.0%)was independently confirmed in the validation set (29 melanomas, 25 nevi)and other published sample sets. The 40-CpG melanoma classifier included homeobox transcription factors and genes with roles in stem cell pluripotency or the nervous system. Application of the 40-CpG melanoma classifier to the diagnostically uncertain samples assigned melanoma or nevus status, potentially offering a diagnostic tool to assist dermatopathologists. In summary, the robust, accurate 40-CpG melanoma classifier offers a promising assay for improving primary melanoma diagnosis

Transverse lattice calculation of the pion light-cone wavefunctions

We calculate the light-cone wavefunctions of the pion by solving the meson boundstate problem in a coarse transverse lattice gauge theory using DLCQ. A large-N_c approximation is made and the light-cone Hamiltonian expanded in massive dynamical fields at fixed lattice spacing. In contrast to earlier calculations, we include contributions from states containing many gluonic link-fields between the quarks.The Hamiltonian is renormalised by a combination of covariance conditions on boundstates and fitting the physical masses M_rho and M_pi, decay constant f_pi, and the string tension sigma. Good covariance is obtained for the lightest 0^{-+} state, which we identify with the pion. Many observables can be deduced from its light-cone wavefunctions.After perturbative evolution,the quark valence structure function is found to be consistent with the experimental structure function deduced from Drell-Yan pi-nucleon data in the valence region x > 0.5. In addition, the pion distribution amplitude is consistent with the experimental distribution deduced from the pi gamma^* gamma transition form factor and diffractive dissociation. A new observable we calculate is the probability for quark helicity correlation. We find a 45% probability that the valence-quark helicities are aligned in the pion.Comment: 27 pages, 9 figure

Association between maternal periconceptional alcohol consumption and neural tube defects: Findings from the National Birth Defects Prevention Study, 1997–2011

Background: Neural tube defects (NTD)s are common birth defects with a multifactorial etiology. Findings from human studies examining environmental (non-inherited) exposures tend to be inconclusive. In particular, although animal studies of alcohol exposure and NTDs support its teratogenic potential, human studies are equivocal. Using data from the National Birth Defects Prevention Study (NBDPS), associations between maternal periconceptional (1 month before through 1 month after conception) alcohol consumption and NTDs in offspring were examined. Methods: NTD cases and unaffected live born singleton controls with expected dates of delivery from October 1997–December 2011 were enrolled in the NBDPS. Interview reports of alcohol consumption (quantity, frequency, variability, type) from 1,922 case and 11,251 control mothers were analyzed. Crude and adjusted odds ratios (aOR)s and 95% confidence intervals (CI)s for alcohol consumption and all NTDs combined and selected subtypes (spina bifida, anencephaly, encephalocele) were estimated using unconditional logistic regression analysis. Results: Among mothers in the NBDPS, 28% of NTD case and 35% of control mothers reported any periconceptional alcohol consumption. For each measure of alcohol consumption, inverse associations were observed for all NTDs combined (aORs = 0.6–1.0). Results for NTD subtypes tended to be similar, but CIs for spina bifida and encephalocele were more likely to include the null. Conclusions: These findings suggest a lack of positive associations between maternal periconceptional alcohol consumption and NTDs. Future studies should continue to evaluate the association between maternal alcohol consumption and NTDs in offspring accounting for methodological limitations such as potential misclassification from self-reported alcohol consumption

Search for a W' boson decaying to a bottom quark and a top quark in pp collisions at sqrt(s) = 7 TeV

Results are presented from a search for a W' boson using a dataset corresponding to 5.0 inverse femtobarns of integrated luminosity collected during 2011 by the CMS experiment at the LHC in pp collisions at sqrt(s)=7 TeV. The W' boson is modeled as a heavy W boson, but different scenarios for the couplings to fermions are considered, involving both left-handed and right-handed chiral projections of the fermions, as well as an arbitrary mixture of the two. The search is performed in the decay channel W' to t b, leading to a final state signature with a single lepton (e, mu), missing transverse energy, and jets, at least one of which is tagged as a b-jet. A W' boson that couples to fermions with the same coupling constant as the W, but to the right-handed rather than left-handed chiral projections, is excluded for masses below 1.85 TeV at the 95% confidence level. For the first time using LHC data, constraints on the W' gauge coupling for a set of left- and right-handed coupling combinations have been placed. These results represent a significant improvement over previously published limits.Comment: Submitted to Physics Letters B. Replaced with version publishe