The importance of evaluating the complete automated knowledge-based planning pipeline

We determine how prediction methods combine with optimization methods in two-stage knowledge-based planning (KBP) pipelines to produce radiation therapy treatment plans. We trained two dose prediction methods, a generative adversarial network (GAN) and a random forest (RF) with the same 130 treatment plans. The models were applied to 87 out-of-sample patients to create two sets of predicted dose distributions that were used as input to two optimization models. The first optimization model, inverse planning (IP), estimates weights for dose-objectives from a predicted dose distribution and generates new plans using conventional inverse planning. The second optimization model, dose mimicking (DM), minimizes the sum of one-sided quadratic penalties between the predictions and the generated plans using several dose-objectives. Altogether, four KBP pipelines (GAN-IP, GAN-DM, RF-IP, and RF-DM) were constructed and benchmarked against the corresponding clinical plans using clinical criteria; the error of both prediction methods was also evaluated. The best performing plans were GAN-IP plans, which satisfied the same criteria as their corresponding clinical plans (78%) more often than any other KBP pipeline. However, GAN did not necessarily provide the best prediction for the second-stage optimization models. Specifically, both the RF-IP and RF-DM plans satisfied the same criteria as the clinical plans 25% and 15% more often than GAN-DM plans (the worst performing plans), respectively. GAN predictions also had a higher mean absolute error (3.9 Gy) than those from RF (3.6 Gy). We find that state-of-the-art prediction methods when paired with different optimization algorithms, produce treatment plans with considerable variation in quality.     

小兴安岭白桦次生林叶面积指数的估测

叶面积指数(LAI)是量化冠层结构最常用的参数之一,准确估测LAI对森林生态系统结构特性的研究具有重要意义.利用半球摄影图像法和LAI-2000法及半球摄影图像法结合凋落物法估测了小兴安岭白桦次生林LAI及其动态变化.首先对该林型叶凋落末期(11月初)的半球摄影图像进行合理校正(包括木质部分所占比例α,冠层水平集聚指数ΩE,校正值作为该时期常绿树种的真实LAI(LAIt),结合各调查期的凋落物数据,得到落叶季节(7-11月)的LAIt,并以该值为参考值,对比分析了两种光学仪器法估测值.结果表明:两种光学仪器法在LAI最大时期低估(分别低估2.83％、6.20％),其他时期显著高估(平均高估118.13％、89.34％),但两种光学仪器法与探讨方法估测值存在很好的相关性:LAIt=-1.1393+1.0934·LAIHP,R2=0.80; LAIt=-0.1712+0.6259·LAILAI-2000,R2=0.83.研究结果可为将来方便、快捷、准确的估测白桦次生林的LAI提供参考.     

Dielectric properties of human skin at an acupuncture point in the 50-75 GHz frequency range: a pilot study

The reason for using acupuncture points as exposure sites in some applications of millimeter wave therapy has been unclear. Acupuncture points have been suspected to exhibit particular direct current (DC), low‐frequency electrical and optical properties compared to surrounding skin. To assess if such a biophysical correlation could exist at millimeter wave frequencies used in the therapy, we investigated the dielectric properties of an acupuncture point on the forearm skin within the 50–75 GHz range. These properties were compared with those of a neighboring ipsilateral control area and a corresponding contralateral control area. The complex reflection coefficient at the end of an open‐ended rectangular waveguide loaded with a Teflon plug was measured with a vector network analyzer. A suitable model of the aperture admittance was used to calculate the dielectric properties of the skin at the measured spots. Statistical analyses were conducted with an ANOVA to compare the three sites. From these analyses, the dielectric properties of the acupuncture site were found to be somewhat different from those of surrounding non‐acupuncture sites from 50 to about 61 GHz, in the case of the real part of the complex permittivity. Bioelectromagnetics 32:360–366, 2011. © 2011 Wiley‐Liss, Inc.     

Computational analysis of fluorescence induction curves in intact spinach leaves treated at different pH

Effects of change in pH have been investigated on spinach leaf discs by measuring fluorescence induction kinetics using plant efficiency analyzer (PEA). On the basis of computational analysis of the results, we have reported that acidic pH causes a significant inhibition of the donor and the acceptor side of PS II. Energy flux models have been presented using the software Biolyzer HP 3. Effects of pH were investigated on the antenna size heterogeneity of PS II and a relative change in the proportions of α, β, and γ centers was observed.     

The effects of fungi pre-treatment of poplar chips on the kraft fiber properties

Poplar chips were pre-treated by Trametes versicolor for 1, 2 and 3 weeks. Pre-treated chips, after washing, have been air dried for kraft pulping to achieve pulp kappa number of about 20. Pulp samples have been analyzed by Bauer Mc Nett, Kajaani analyzer and SEM. The results indicated that fungi pre-treatment of chips can degrade lignin and carbohydrates and affect kraft pulping and fiber characteristics. Higher chemical charge in pulping, lower fine and higher long fiber fraction were observed in pre-treated pulp samples in comparison with others. Fiber length, cross sectional area, width, cell wall thickness and volume index were increased by increasing pre-treatment time while fine length, fiber coarseness and curl have been reduced. Based on the study findings, with respect to higher fiber length, lower fine, and lower fiber curl and coarseness, 2-weeks pre-treatment of chips was recommended to produce acceptable overall fiber properties in kraft pulping.     

Effects of fasting on hematologic and clinical chemical values in cynomolgus monkeys (Macaca fascicularis)

Background Fasting is an important pre‐analytical factor that may affect clinical pathology parameters in toxicological and pharmacological studies. Little information is available on how fasting affects clinical pathology parameters in cynomolgus monkeys (Macaca fascicularis).The aim of this study was to evaluate the influence of fasting on clinical pathology parameters in healthy adult cynomolgus monkeys. Methods Five female and six male cynomolgus monkeys were fasted for 0, 8, 16, and 24 hours. Changes in body weight (BW), core hematologic, and serum clinical chemical parameters were evaluated. Results The BW significantly decreased after 24 hours of fasting. Significant decreases in red blood cell count, hemoglobin, hematocrit, and mean corpuscular volume and increases in mean cell hemoglobin and mean cell hemoglobin concentration were observed at 16 hours in males. In females, increasing the duration of fasting caused a significant time‐dependent increase in platelets. Blood urea nitrogen showed significant decreases in female and male monkeys after fasting. Alkaline phosphatase increased in females after fasting. Aspartate transaminase significantly increased both in females and males at 8 hours. In females, alanine transaminase and lactate dehydrogenase significantly increased at 8 hours. Albumin significantly decreased in males 24 hours, but increased in females 16 hours after fasting. Serum glucose and triglyceride were not affected by fasting. Serum calcium decreased and inorganic phosphorus increased in males after fasting. Conclusion These results suggested that clinical pathology data would vary after fasting. The decision to feed or fast before blood collection for clinical pathology tests should be made based on careful consideration.     

Automated sperm head morphology analyzer for open-source software

Sperm head morphology has been identified as a characteristic that can be used to predict a male's semen quality. In the present study, we have developed an automated sperm head morphology analysis (ASMA) plug-in for open-source ImageJ software (http://rsbweb.nih.gov/ij/). We describe the plug-in's functionality, and confirm its validity for sperm head morphology analysis using fish sperm. Sperm head morphological measurements (length and width) made with the ASMA plug-in did not differ from manual measurements. Using the plug-in to measure sperm head-shaped objects of known size, the associated plug-in error rate was < 0.5%. Brightness and contrast ratios influenced sperm head measurements, suggesting the need for standardized protocols. This plug-in was effective at measuring elliptical (i.e., Atlantic cod) as well as slightly irregular (i.e., Chinook salmon) shaped sperm heads. In conclusion, our ASMA plug-in represents a versatile alternative to costly sperm morphology software.     

Mass production of bacterial communities adapted to the degradation of volatile organic compounds (TEX)

This study focuses on the mass cultivation of bacteria adapted to the degradation of a mixture composed of toluene, ethylbenzene, o-, m- and p-xylenes (TEX). For the cultivation process Substrate Pulse Batch (SPB) technique was adapted under well-automated conditions. The key parameters to be monitored were handled by LabVIEW software including, temperature, pH, dissolved oxygen and turbidity. Other parameters, such as biomass, ammonium or residual substrate concentrations needed offline measurements. SPB technique has been successfully tested experimentally on TEX. The overall behavior of the mixed bacterial population was observed and discussed along the cultivation process. Carbon and nitrogen limitations were shown to affect the integrity of the bacterial cells as well as their production of exopolymeric substances (EPS). Average productivity and yield values successfully reached the industrial specifications, which were 0.45 kg_DW m⁻³ d⁻¹ and 0.59 g_DW g_C⁻¹, respectively. Accuracy and reproducibility of the obtained results present the controlled SPB process as a feasible technique.