Contributors: UnaElsLive Natra
... MD-2831 Update Java version in the Docker containers
Contributors: UnaElsLive Natra, mdgmatest5 live
... RDM - File Type Support 21May2019 ElsCustomer Apart from .u3d all files preview [ .obj / .ply / .vtk / .stl / .ent / .brk / .pdb / .pse / .mol / .mol2 / .cif / .u3d / .dcm / .nii] - .pse is not supported
Contributors: ginny-marie Bradley
... Data used during my PhD on the Tumblagooda Sandstone to compare modern paralic systems to one deposited in the absence of plants.
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Contributors: Knut Einar Rosendahl
... Abstract of associated article: We examine the largest cost component in offshore development projects, rig rates. High rig rates in recent years have restricted development of new oil and gas fields, as well as IOR projects and thus increased the cost for importing countries. Thus, it is important to understand developments in rig rates. Using econometric analysis, we examine the effects on jackup rig rates from gas and oil prices, rig capacity utilisation, contract length and lead time, and rig-specific characteristics like drilling depth capacities and rig classification. Having access to a unique data set from the Gulf of Mexico (GoM), containing contract information, we are able to estimate how contract parameters crucial to the relative bargaining power between rig owners and oil and gas companies affect rig rates. We find that increasing lead times and contract lengths enhance the bargaining power of the rig companies and are likely to be associated with higher rates for new contracts. Further, we find that gas prices are more important for jackup rig rates in the GoM area than oil prices — ten percent increase in gas prices leads to nine percent increase in rig rates in the long run, according to our results.
Data from: A novel method for using ecoacoustics to monitor post‐translocation behaviour in an endangered passerine
Contributors: Metcalf, Oliver C., Ewen, John G., McCready, Mhairi, Williams, Emma M., Rowcliffe, J. Marcus
... 1. Conservation translocations are an important tool in wildlife management, but have traditionally suffered from a low success rate. Increasing understanding of animal behaviour is vital in improving the success of translocations, but few methods exist to efficiently monitor highly mobile and cryptic species post-release. 2. We present a novel approach to using dynamic occupancy modelling in combination with data derived from autonomous acoustic recording units to monitor the post-release behaviour of hihi (Notiomystis cincta), a threatened endemic bird, at a translocation site in New Zealand. The process of analysing large quantities of acoustic data was facilitated by using automated classifiers and manual validation, an approach that was both accurate and efficient. 3. We find that this approach detects behavioural change consistent with the transition from exploration of a new site to territory formation. We identify that hihi territories at the study site were closely linked to watercourses, but were not related to distance from release site. 4. We find that this method is able to effectively monitor post-release dispersal, and could provide a cost-efficient and less invasive alternative to radio-tracking for monitoring of vocal species.
Auditory motion in the sighted and blind: Early visual deprivation triggers a large-scale imbalance between auditory and “visual” brain regions
Contributors: Giulia Dormal, Mohamed Rezk, Esther Yakobov, Franco Lepore, Olivier Collignon
... How early blindness reorganizes the brain circuitry that supports auditory motion processing remains controversial. We used fMRI to characterize brain responses to in-depth, laterally moving, and static sounds in early blind and sighted individuals. Whole-brain univariate analyses revealed that the right posterior middle temporal gyrus and superior occipital gyrus selectively responded to both in-depth and laterally moving sounds only in the blind. These regions overlapped with regions selective for visual motion (hMT+/V5 and V3A) that were independently localized in the sighted. In the early blind, the right planum temporale showed enhanced functional connectivity with right occipito-temporal regions during auditory motion processing and a concomitant reduced functional connectivity with parietal and frontal regions. Whole-brain searchlight multivariate analyses demonstrated higher auditory motion decoding in the right posterior middle temporal gyrus in the blind compared to the sighted, while decoding accuracy was enhanced in the auditory cortex bilaterally in the sighted compared to the blind. Analyses targeting individually defined visual area hMT+/V5 however indicated that auditory motion information could be reliably decoded within this area even in the sighted group. Taken together, the present findings demonstrate that early visual deprivation triggers a large-scale imbalance between auditory and “visual” brain regions that typically support the processing of motion information.
Contributors: Keith Pardee, Alexander A. Green, Melissa K. Takahashi, Dana Braff, Guillaume Lambert, Jeong Wook Lee, Tom Ferrante, Duo Ma, Nina Donghia, Melina Fan
... The recent Zika virus outbreak highlights the need for low-cost diagnostics that can be rapidly developed for distribution and use in pandemic regions. Here, we report a pipeline for the rapid design, assembly, and validation of cell-free, paper-based sensors for the detection of the Zika virus RNA genome. By linking isothermal RNA amplification to toehold switch RNA sensors, we detect clinically relevant concentrations of Zika virus sequences and demonstrate specificity against closely related Dengue virus sequences. When coupled with a novel CRISPR/Cas9-based module, our sensors can discriminate between viral strains with single-base resolution. We successfully demonstrate a simple, field-ready sample-processing workflow and detect Zika virus from the plasma of a viremic macaque. Our freeze-dried biomolecular platform resolves important practical limitations to the deployment of molecular diagnostics in the field and demonstrates how synthetic biology can be used to develop diagnostic tools for confronting global health crises.
Harmonic context influences pitch class equivalence judgments through gestalt and congruency effects
Contributors: Anka Slana, Grega Repovš, W. Tecumseh Fitch, Bruno Gingras
... The context in which a stimulus is presented shapes the way it is processed. This effect has been studied extensively in the field of visual perception. Our understanding of how context affects the processing of auditory stimuli is, however, rather limited. Western music is primarily built on melodies (succession of pitches) typically accompanied by chords (harmonic context), which provides a natural template for the study of context effects in auditory processing. Here, we investigated whether pitch class equivalence judgments of tones are affected by the harmonic context within which the target tones are embedded. Nineteen musicians and 19 non-musicians completed a change detection task in which they were asked to determine whether two successively presented target tones, heard either in isolation or with a chordal accompaniment (same or different chords), belonged to the same pitch class. Both musicians and non-musicians were most accurate when the chords remained the same, less so in the absence of chordal accompaniment, and least when the chords differed between both target tones. Further analysis investigating possible mechanisms underpinning these effects of harmonic context on task performance revealed that both a change in gestalt (change in either chord or pitch class), as well as incongruency between change in target tone pitch class and change in chords, led to reduced accuracy and longer reaction times. Our results demonstrate that, similarly to visual processing, auditory processing is influenced by gestalt and congruency effects.
Contributors: Romain Banchereau, Seunghee Hong, Brandi Cantarel, Nicole Baldwin, Jeanine Baisch, Michelle Edens, Alma-Martina Cepika, Peter Acs, Jacob Turner, Esperanza Anguiano
... Systemic lupus erythematosus (SLE) is an autoimmune disease characterized by loss of tolerance to nucleic acids and highly diverse clinical manifestations. To assess its molecular heterogeneity, we longitudinally profiled the blood transcriptome of 158 pediatric patients. Using mixed models accounting for repeated measurements, demographics, treatment, disease activity (DA), and nephritis class, we confirmed a prevalent IFN signature and identified a plasmablast signature as the most robust biomarker of DA. We detected gradual enrichment of neutrophil transcripts during progression to active nephritis and distinct signatures in response to treatment in different nephritis subclasses. Importantly, personalized immunomonitoring uncovered individual correlates of disease activity that enabled patient stratification into seven groups, supported by patient genotypes. Our study uncovers the molecular heterogeneity of SLE and provides an explanation for the failure of clinical trials. This approach may improve trial design and implementation of tailored therapies in genetically and clinically complex autoimmune diseases.
Articles - Prognostic value of medulloblastoma extent of resection after accounting for molecular subgroup: a retrospective integrated clinical and molecular analysis
Contributors: Eric M Thompson, Thomas Hielscher, Eric Bouffet, Marc Remke, Betty Luu, Sridharan Gururangan, Roger E McLendon, Darell D Bigner, Eric S Lipp, Sebastien Perreault
... Patients with incomplete surgical resection of medulloblastoma are controversially regarded as having a marker of high-risk disease, which leads to patients undergoing aggressive surgical resections, so-called second-look surgeries, and intensified chemoradiotherapy. All previous studies assessing the clinical importance of extent of resection have not accounted for molecular subgroup. We analysed the prognostic value of extent of resection in a subgroup-specific manner.