Biomarkers for tyrosine kinase inhibitors in renal cell cancer

Renal cell carcinoma (RCC) is a common malignancy. In 2012, in the USA, there were 65,000 new cases and 13,500 disease-specific deaths. In the same year it was the 6th most common new cancer diagnosed. During the last 50 years, despite an increase in incidence, the mortality has fallen, a possible result of earlier detection and improvements in therapy

Do plant species influence soil CO2 and N2O fluxes in a diverse tropical forest?

To test whether plant species influence greenhouse gas production in diverse ecosystems, we measured wet season soil CO2 and N2O fluxes close to ~300 large (>35 cm in diameter at breast height (DBH)) trees of 15 species at three clay-rich forest sites in central Amazonia. We found that soil CO2 fluxes were 38% higher near large trees than at control sites >10 m away from any tree (P < 0.0001). After adjusting for large tree presence, a multiple linear regression of soil temperature, bulk density, and liana DBH explained 19% of remaining CO2 flux variability. Soil N2O fluxes adjacent to Caryocar villosum, Lecythis lurida, Schefflera morototoni, and Manilkara huberi were 84%-196% greater than Erisma uncinatum and Vochysia maxima, both Vochysiaceae. Tree species identity was the most important explanatory factor for N2O fluxes, accounting for more than twice the N2O flux variability as all other factors combined. Two observations suggest a mechanism for this finding: (1) sugar addition increased N2O fluxes near C. villosum twice as much (P < 0.05) as near Vochysiaceae and (2) species mean N2O fluxes were strongly negatively correlated with tree growth rate (P = 0.002). These observations imply that through enhanced belowground carbon allocation liana and tree species can stimulate soil CO2 and N2O fluxes (by enhancing denitrification when carbon limits microbial metabolism). Alternatively, low N2O fluxes potentially result from strong competition of tree species with microbes for nutrients. Species-specific patterns in CO2 and N2O fluxes demonstrate that plant species can influence soil biogeochemical processes in a diverse tropical forest

Individualized Positron Emission Tomography-Based Isotoxic Accelerated Radiation Therapy Is Cost-Effective Compared With Conventional Radiation Therapy: A Model-Based Evaluation

Purpose: To evaluate long-term health effects, costs, and cost-effectiveness of positron emission tomography (PET)-based isotoxic accelerated radiation therapy treatment (PET-ART) compared with conventional fixed-dose CT-based radiation therapy treatment (CRT) in non-small cell lung cancer (NSCLC). Methods and Materials: Our analysis uses a validated decision-model, based on data of 200 NSCLC patients with inoperable stage I-IIIB. Clinical outcomes, resource use, costs, and utilities were obtained from the Maastro Clinic and the literature. Primary model outcomes were the difference in life-years (LYs), quality-adjusted life-years (QALYs), costs, and the incremental cost-effectiveness and cost/utility ratio (ICER and ICUR) of PET-ART versus CRT. Model outcomes were obtained from averaging the predictions for 50,000 simulated patients. A probabilistic sensitivity analysis and scenario analyses were carried out. Results: The average incremental costs per patient of PET-ART were V569 (95% confidence interval [CI] (sic)-5327-(sic)6936) for 0.42 incremental LYs (95% CI 0.19-0.61) and 0.33 QALYs gained (95% CI 0.13-0.49). The base-case scenario resulted in an ICER of (sic)1360 per LY gained and an ICUR of (sic)1744 per QALY gained. The probabilistic analysis gave a 36% probability that PET-ART improves health outcomes at reduced costs and a 64% probability that PET-ART is more effective at slightly higher costs. Conclusion: On the basis of the available data, individualized PET-ART for NSCLC seems to be cost-effective compared with CRT

A CANDLE for a deeper in-vivo insight

A new Collaborative Approach for eNhanced Denoising under Low-light Excitation (CANDLE) is introduced for the processing of 3D laser scanning multiphoton microscopy images. CANDLE is designed to be robust for low signal-to-noise ratio (SNR) conditions typically encountered when imaging deep in scattering biological specimens. Based on an optimized non-local means filter involving the comparison of filtered patches, CANDLE locally adapts the amount of smoothing in order to deal with the noise inhomogeneity inherent to laser scanning fluorescence microscopy images. An extensive validation on synthetic data, images acquired on microspheres and in vivo images is presented. These experiments show that the CANDLE filter obtained competitive results compared to a state-of-the-art method and a locally adaptive optimized non-local means filter, especially under low SNR conditions (PSNR < 8 dB). Finally, the deeper imaging capabilities enabled by the proposed filter are demonstrated on deep tissue in vivo images of neurons and fine axonal processes in the Xenopus tadpole brain.We want to thank Florian Luisier for providing free plugin of his PureDenoise filter. We also want to thank Markku Makitalo for providing the code of their OVST. This study was supported by the Canadian Institutes of Health Research (CIHR, MOP-84360 to DLC and MOP-77567 to ESR) and Cda (CECR)-Gevas-OE016. MM holds a fellowship from the Deutscher Akademischer Austasch Dienst (DAAD) and a McGill Principal's Award. ESR is a tier 2 Canada Research Chair. This work has been partially supported by the Spanish Health Institute Carlos III through the RETICS Combiomed, RD07/0067/2001. This work benefited from the use of ImageJ.Coupé, P.; Munz, M.; Manjón Herrera, JV.; Ruthazer, ES.; Collins, DL. (2012). A CANDLE for a deeper in-vivo insight. Medical Image Analysis. 16(4):849-864. https://doi.org/10.1016/j.media.2012.01.002S84986416

Does Amazon forest leaf phenology mediate transpiration seasonality and hence, ecoclimate teleconnections?

Abstract OOS 11-5

Collaborative patch-based super-resolution for diffusion-weighted images

In this paper, a new single image acquisition super-resolution method is proposed to increase image resolution of diffusion weighted (DW) images. Based on a nonlocal patch-based strategy, the proposed method uses a non-diffusion image (b0) to constrain the reconstruction of DW images. An extensive validation is presented with a gold standard built on averaging 10 high-resolution DW acquis itions. A comparison with classical interpo- lation methods such as trilinear and B-spline demonstrates the competitive results of our proposed approach in termsofimprovementsonimagereconstruction,fractiona lanisotropy(FA)estimation,generalizedFAandangular reconstruction for tensor and high angular resolut ion diffusion imaging (HARDI) models. Besides, fi rst results of reconstructed ultra high resolution DW images are presented at 0.6 × 0.6 × 0.6 mm 3 and0.4×0.4×0.4mm 3 using our gold standard based on the average of 10 acquisitions, and on a single acquisition. Finally, fi ber tracking results show the potential of the proposed super-resolution approach to accurately analyze white matter brain architecture.We thank the reviewers for their useful comments that helped improve the paper. We also want to thank the Pr Louis Collins for proofreading this paper and his fruitful comments. Finally, we want to thank Martine Bordessoules for her help during image acquisition of DWI used to build the phantom. This work has been supported by the French grant "HR-DTI" ANR-10-LABX-57 funded by the TRAIL from the French Agence Nationale de la Recherche within the context of the Investments for the Future program. This work has been also partially supported by the French National Agency for Research (Project MultImAD; ANR-09-MNPS-015-01) and by the Spanish grant TIN2011-26727 from the Ministerio de Ciencia e Innovacion. This work benefited from the use of FSL (http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/), FiberNavigator (code.google.com/p/fibernavigator/), MRtrix software (http://www. brain.org.au/software/mrtrix/) and ITKsnap (www.itk.org).Coupé, P.; Manjón Herrera, JV.; Chamberland, M.; Descoteaux, M.; Hiba, B. (2013). Collaborative patch-based super-resolution for diffusion-weighted images. NeuroImage. 83:245-261. https://doi.org/10.1016/j.neuroimage.2013.06.030S2452618

Micro-costing diagnostics in oncology:from single-gene testing to whole- genome sequencing

Purpose: Predictive diagnostics play an increasingly important role in personalized medicine for cancer treatment. Whole-genome sequencing (WGS)-based treatment selection is expected to rapidly increase worldwide. This study aimed to calculate and compare the total cost of currently used diagnostic techniques and of WGS in treatment of non-small cell lung carcinoma (NSCLC), melanoma, colorectal cancer (CRC), and gastrointestinal stromal tumor (GIST) in the Netherlands. Methods: The activity-based costing (ABC) method was conducted to calculate total cost of included diagnostic techniques based on data provided by Dutch pathology laboratories and the Dutch-centralized cancer WGS facility. Costs were allocated to four categories: capital costs, maintenance costs, software costs, and operational costs. Results: The total cost per cancer patient per technique varied from € 58 (Sanger sequencing, three amplicons) to € 2925 (paired tumor-normal WGS). The operational costs accounted for the vast majority (over 90%) of the total per cancer patient technique costs. Conclusion: This study outlined in detail all costing aspects and cost prices of current and new diagnostic modalities used in treatment of NSCLC, melanoma, CRC, and GIST in the Netherlands. Detailed cost differences and value comparisons between these diagnostic techniques enable future economic evaluations to support decision-making

Approaches to communication assessment with children and adults with profound intellectual and multiple disabilities

Communication assessment of people with profound intellectual and multiple disabilities (PIMD) has seldom been investigated. Here we explore approaches and decision making in undertaking communication assessments in this group of people. A questionnaire was sent to UK practitioners. The questionnaire elicited information about assessment approaches used and rationales for assessment choices. Fifty-five speech and language therapists (SLTs) responded. Findings revealed that the Preverbal Communication Schedule, the Affective Communication Assessment and the Checklist of Communication Competence were the most frequently used published assessments. Both published and unpublished assessments were often used. Rationales for assessment choice related to assessment utility, sensitivity to detail and change and their applicability to people with PIMD. Underpinning evidence for assessments was seldom mentioned demonstrating the need for more empirical support for assessments used. Variability in practice and the eclectic use of a range of assessments was evident, underpinned by practice-focused evidence based on tacit knowledge

Age-dependent leaf function and consequences for carbon uptake of leaves, branches, and the canopy during the dry season in an Amazon evergreen forest.

Abstract COS 124-3