Miracle-dz/UniFAR-FTUs huggingface dataset:
Evaluation of the analytical anisotropic algorithm in an extreme water–lung interface phantom using Monte Carlo dose calculations

Our study compares the performance of the analytical anisotropic algorithm (AAA), a new superposition–convolution algorithm recently implemented in the Eclipse (Varian Medical Systems, Palo Alto, CA) Integrated Treatment Planning System (TPS), to that of the pencil beam convolution (PBC) algorithm in an extreme (C‐shaped, horizontal and vertical boundaries) water–lung interface phantom. Monte Carlo (MC) calculated dose distributions for a variety of clinical beam configurations at nominal energies of 6‐MV and 18‐MV are used as benchmarks in the comparison. Dose profiles extracted at three depths (4, 10, and 16 cm), two‐dimensional (2D) maps of the dose differences, and dose difference statistics are used to quantify the accuracy of both photon‐dose calculation algorithms. Results show that the AAA is considerably more accurate than the PBC, with the standard deviation of the dose differences within a region encompassing the lung block reduced by a factor of 2 and more. Confidence limits with the AAA were 4% or less for all beam configurations investigated; with the PBC, confidence limits ranged from 3.5% to 11.2%. Finally, AAA calculations for the small 4×4 18‐MV beam, which is poorly modeled by PBC (dose differences as high as 16.1%), provided the same accuracy as the PBC model of the 6‐MV beams commonly acceptable in clinical situations. PACS number: 87.53. Bn
Discovery, validation and optimization of cerebrospinal fluid biomarkers for use in Parkinson’s disease

ABSTRACT Introduction: Parkinson’s disease (PD) is a complex and phenotypically heterogeneous neurodegenerative disease, for which the diagnosis is mainly based on clinical parameters (even if neuroimaging plays a role in diagnostic assessment); as a consequence, misdiagnosis is common, especially in early stages. Thus, there is an urgent need of having available biomarkers in order to achieve an early and accurate diagnosis. Since molecular changes in the brain are reliably and timely reflected in cerebrospinal fluid (CSF), CSF represents an ideal source for biomarkers of different pathophysiological processes characterizing the disease since its early phases. Areas covered: The aim of this review is to provide an update on the role, development and validation of most studied CSF biomarkers showing a role in the diagnosis and/or prognosis of PD. Oligomeric alpha-synuclein, DJ-1, lysosomal enzymes (namely, glucocerebrosidase) show consistent evidence as potential diagnostic biomarkers of PD. Neurofilament light chain may also have a significant role in differentiating PD from other parkinsonisms. Amyloid beta peptide 1–42 has consistently shown a prognostic value in terms of development of cognitive impairment and dementia in PD patients. Expert commentary: CSF biomarkers represent a very promising approach to early and differential diagnosis of PD. The biomarkers available so far need preanalytical and analytical validation in order to have these CSF biomarkers ready for clinical use.
The Evolutionary unZIPping of a Dimerization Motif—A Comparison of ZIP and PrP Architectures

The cellular prion protein, notorious for its causative role in a range of fatal neurodegenerative diseases, evolved from a Zrt-/Irt-like Protein (ZIP) zinc transporter approximately 500 million years ago. Whilst atomic structures for recombinant prion protein (PrP) from various species have been available for some time, and are believed to stand for the structure of PrPC, the first structure of a ZIP zinc transporter ectodomain was reported only recently. Here, we compare this ectodomain structure to structures of recombinant PrP. A shared feature of both is a membrane-adjacent helix-turn-helix fold that is coded by a separate exon in the respective ZIP transporters and is stabilized by a disulfide bridge. A ‘CPALL’ amino acid motif within this cysteine-flanked core domain appears to be critical for dimerization and has undergone stepwise regression in fish and mammalian prion proteins. These insights are intriguing in the context of repeated observations of PrP dimers. Other structural elements of ZIP transporters and PrP are discussed with a view to distilling shared versus divergent biological functions.
Commissioning kilovoltage cone‐beam CT beams in a radiation therapy treatment planning system

The feasibility of accounting of the dose from kilovoltage cone‐beam CT in treatment planning has been discussed previously for a single cone‐beam CT (CBCT) beam from one manufacturer. Modeling the beams and computing the dose from the full set of beams produced by a kilovoltage cone‐beam CT system requires extensive beam data collection and verification, and is the purpose of this work. The beams generated by Elekta X‐ray volume imaging (XVI) kilovoltage CBCT (kV CBCT) system for various cassettes and filters have been modeled in the Philips Pinnacle treatment planning system (TPS) and used to compute dose to stack and anthropomorphic phantoms. The results were then compared to measurements made using thermoluminescent dosimeters (TLDs) and Monte Carlo (MC) simulations. The agreement between modeled and measured depth‐dose and cross profiles is within 2% at depths beyond 1 cm for depth‐dose curves, and for regions within the beam (excluding penumbra) for cross profiles. The agreements between TPS‐calculated doses, TLD measurements, and Monte Carlo simulations are generally within 5% in the stack phantom and 10% in the anthropomorphic phantom, with larger variations observed for some of the measurement/calculation points. Dose computation using modeled beams is reasonably accurate, except for regions that include bony anatomy. Inclusion of this dose in treatment plans can lead to more accurate dose prediction, especially when the doses to organs at risk are of importance. PACS numbers: 87.55. D, 87.55. K, 87.56. bd
Interplay effect of angular dependence and calibration field size of MapCHECK 2 on RapidArc quality assurance

The purpose of this study is to investigate an effect of angular dependence and calibration field size of MapCHECK 2 on RapidArc QA for 6, 8, 10, and 15 MV The angular dependence was investigated by comparing MapCHECK 2 measurements in MapPHAN‐MC2 to the corresponding Eclipse calculations every 10° using 10 × 10 cm2 and 3 × 3 cm2 fields. Fourteen patients were selected to make RapidArc plans using the four energies, and verification plans were delivered to two phantom setups: MapCHECK 2/MapPHAN phantom (MapPHAN QA) and MapCHECK 2 on an isocentric mounting fixture (IMF QA). Migration of MapCHECK 2 on IMF was simulated by splitting arcs every 10° and displacing an isocenter of each partial arc in the Eclipse system (IMFACTUAL QA). To investigate the effect of calibration field size, MapCHECK 2 was calibrated by two field sizes (10 × 10 cm2 and 3 × 3 cm2) and applied to all QA measurements. The γ test was implemented using criteria of 1%/1 mm, 2%/2 mm, and 3%/3 mm. A mean dose of all compared points for each plan was compared with respect to a mean effective field size of the RapidArc plan. The angular dependence was considerably high at gantry angles of 90° ± 10° and 270° ± 10° (for 10 × 10/3 × 3 cm2 at 90°, 30.6% ± 6.6%/33.4%± 5.8% (6 MV), 17.3% ± 5.3%/15.0% ± 6.8% (8 MV), 8.9% ± 2.9%/7.8% ± 3.2% (10 MV), and 2.2% ± 2.3%/‐1.3% ± 2.6% (15 MV)). For 6 MV, the angular dependence significantly deteriorated the γ passing rate for plans of large field size in MapPHAN QA (< 90% using 3%/3 mm); however, these plans passed the γ test in IMFACTUAL QA (> 95%). The different calibration field sizes did not make any significant dose difference for both MapPHAN QA and IMFACTUAL QA. For 8, 10, and 15 MV, the angular dependence does not make any clinically meaningful impact on MapPHAN QA. Both MapPHAN QA and IMFACTUAL QA presented clinically acceptable γ passing rates using 3%/3 mm. MapPHAN QA showed better passing rates than IMFACTUAL QA for the tighter criteria. The 10 × 10 cm2 calibration showed better agreement for plans of small effective field size (< 5 × 5 cm2) in MapPHAN QA. There was no statistical difference between IMF QA and IMFACTUAL QA. In conclusion, MapPHAN QA is not recommended for plans of large field size, especially for 6 MV, and MapCHECK 2 should be calibrated using a field size similar to a mean effective field size of a RapidArc plan for better agreement for IMF QA. PACS numbers: 87.55. km, 87.55. Qr, 87.56. Fc
Dosimetric characterization of GMS BT‐125‐1 125I radioactive seed with Monte Carlo simulations and experimental measurement

Abstract Purpose To investigate the dosimetric characteristics of the new GMS BT‐125‐1 125I radioactive seed, including dose rate constant, radial dose functions, and anisotropy functions. Methods Dosimetric parameters of GMS BT‐125‐1 125I seed including dose rate constant, radial dose functions, and anisotropy functions were calculated using the Monte Carlo code of MCNP5, and measured with thermoluminescent dosimeters (TLDs). The results were compared with those of PharmaSeed BT‐125‐1, PharmaSeed BT‐125‐2 125I, and model 6711 125I seeds. Results The dose rate constant of GMS BT‐125‐1 125I seed was 0.959 cGy·h−1·U−1, with the difference of 0.94%, 0.83%, and 0.73% compared with the PharmaSeed BT‐125‐1 125I seed, PharmaSeed BT‐125‐2 125I seed, and Model 6711 125I seed, respectively. For radial dose function, the differences between the Monte Carlo and the experimental g(r) results were mostly within 10%. Monte Carlo results of g(r) for GMS BT‐125‐1 125I seed were found in agreement (within 3.3%) with corresponding results for the PharmaSeed BT‐125‐2 125I seed. The largest differences were 8.1% and 6.2% compared with PharmaSeed BT‐125‐1 125I seed and model 6711 125I seed, respectively. For anisotropy function, the difference between GMS BT‐125‐1 125I seed and PharmaSeed BT‐125‐2 125I seed was typically <10%. Conclusions The measured dose rate constant, radial dose functions, and two‐dimensional anisotropy functions for the GMS BT‐125‐1 125I seed showed good agreement with the Monte Carlo results. The dose rate constant of the GMS BT‐125‐1 125I seed is similar to that of the PharmaSeed BT‐125‐1 125I seed, the PharmaSeed BT‐125‐2 125I seed, and the model 6711 125I seed. For radial dose functions and two‐dimensional anisotropy functions, the GMS BT‐125‐1 125I seed is similar to the PharmaSeed BT‐125‐2 125I seed but different from the PharmaSeed BT‐125‐1 125I seed and the model 6711 125I seed.
Stereotactic IMRT for prostate cancer: Dosimetric impact of multileaf collimator leaf width in the treatment of prostate cancer with IMRT

The focus of this work is the dosimetric impact of multileaf collimator (MLC) leaf width on the treatment of prostate cancer with intensity‐modulated radiation therapy (IMRT). Ten patients with prostate cancer were planned for IMRT delivery using two different MLC leaf widths—4 mm and 10 mm— representing the Radionics micro‐multileaf collimator (mMLC) and Siemens MLC, respectively. Treatment planning was performed on the XKnifeRT2 treatment‐planning system (Radionics, Burlington, MA). All beams and optimization parameters were identical for the mMLC and MLC plans. All the plans were normalized to ensure that 95% of the planning target volume (PTV) received 100% of the prescribed dose. The differences in dose distribution between the two different plans were assessed by dose–volume histogram (DVH) analysis of the target and critical organs. We specifically compared the volume of rectum receiving 40 Gy (V40), 50 Gy (V50), 60 Gy (V60), the dose received by 17% and 35% of rectum (D17 and D35), and the maximum dose to 1 cm3 of the rectum for a prescription dose of 74 Gy. For the urinary bladder, the dose received by 25% of bladder (D25), V40, and the maximum dose to 1 cm3 of the organ were recorded. For PTV we compared the maximum dose to the “hottest” 1 cm3 (Dmax1cm3) and the dose to 99% of the PTV (D99). The dose inhomogeneity in the target, defined as the ratio of the difference in Dmax1cm3 and D99 to the prescribed dose, was also compared between the two plans. In all cases studied, significant reductions in the volume of rectum receiving doses less than 65 Gy were seen using the mMLC. The average decrease in the volume of the rectum receiving 40 Gy, 50 Gy, and 60 Gy using the mMLC plans was 40.2%, 33.4%, and 17.7%, respectively, with p<0.0001 for V40 and V50 and p<0.012 for V60. The mean dose reductions for D17 and D35 for the rectum using the mMLC were 20.4% (p<0.0001) and 18.3% (p<0.0002), respectively. There were consistent reductions in all dose indices studied for the bladder. The target dose inhomogeneity was improved in the mMLC plans by an average of 29%. In the high‐dose range, there was no significant difference in the dose deposited in the “hottest” 1 cm3 of the rectum between the two plans for all cases (p>0.78). In conclusion, the use of the mMLC for IMRT of the prostate resulted in significant improvement in the DVH parameters of the prostate and critical organs, which may improve the therapeutic ratio. PACS number: 87.53. Tf
Stochastic Multiscale Model of MEMS Stiction Accounting for High-Order Statistical Moments of Non-Gaussian Contacting Surfaces

Stiction is a failure mode of microelectromechanical systems (MEMS) involving permanent adhesion of moving surfaces. Models of stiction typically describe the adhesion as a multiple asperity adhesive contact between random rough surfaces, and they thus require a sufficiently accurate statistical representation of the surface, which may be non-Gaussian. If the stiction is caused primarily by multiple asperity adhesive contact in only a small portion of the apparent area of the contacting surfaces, the number of adhesive contacts between asperities may not be sufficiently statistically significant for a homogenized model to be representative. We have proposed a probabilistic multiscale model of multiple asperity adhesive contact that can capture the uncertainty in a stiction behavior. Whereas the previous paper considered Gaussian random rough surfaces, the aim of this paper is to extend this probabilistic multiscale model to non-Gaussian random rough surfaces whose probabilistic representation accounts for the high-order statistical moments of the surface height. The probabilistic multiscale model thus obtained is validated by means of a comparison with experimental data of stiction tests of cantilever beams reported in the literature. [2017–0215]
Investigation of the vibrational characteristics of double-walled carbon nanotubes/double-layered graphene sheets using the finite element method

ABSTRACT This article concerns the investigation of the vibrational behavior of double-walled carbon nanotubes/double-layered graphene sheets junctions using the finite element method. The bonds and atoms are modeled by beam and mass elements, respectively. Moreover, the van der Waals interactions are simulated by spring elements. The effects of the length of the nanotube and the dimensions of the nanosheet on the natural frequencies of the junctions are examined. It is shown that when the boundary conditions are applied on the nanotube, the geometrical parameters of nanotubes have a significant effect on the vibrational behavior of the junctions.
Optical and thermomechanical properties of plasma-enhanced CVD silicon dioxide films upon annealing

Device parameters, like center frequency, polarization dependent loss (PDL), and optical crosstalk in silica-based waveguide device, are determined by the refractive index (RI) and its uniformity across the wafer, thermal expansion coefficient (TCE), and biaxial elastic modulus of silica film. In this study the optical and thermo-mechanical properties of plasma enhanced CVD silica films with different compositions were investigated before and after thermal annealing. RI of deposited films decreased sharply with N2O/SiH4 ratio up to 40, and increased slowly when this ratio was larger than 60. The minimum RI of deposited film was found slightly higher than that of thermal oxide. CTE and elastic modulus of silica film were obtained by measuring the film stress with temperature. Growth stresses of deposited films were increased with N2O/SiH4 ratio. Due to the porous structure, the CTE and elastic modulus of deposited films at low temperature range (<400°C) were different from those of pure silica. Sharp rise in stress due to gas evolution from film was observed around 500°C. The amount of stress increase and the origin of evolved gas are dependent on the film composition. When silica films were fully annealed (1100°C for 4hour), their CTE and elastic modulus were the same as those of thermal oxide. Upon annealing at high temperature (~800°C), however, cracks were generated on sub-oxide film, which was deposited at low N2O/SiH4 ratio. RI of annealed films changed with the composition of deposited film, the annealing temperature, and the cooling rate after anneal.
A Qualitative Exploration of the Experiences of Veterans Who Are Serving Sentences in Custody

The focus on veterans in research is not a novel topic; however, the majority of studies are related to trauma, employment, mental health, suicide, and substance misuse. The criminal justice system involvement with veterans is a topic that has yet to be examined to a great extent. This study, conducted with adult male prisoners, elicited information from six veterans regarding their experiences of being in the armed forces, leaving the armed forces, and becoming involved in the criminal justice system. Responses were evaluated using interpretative phenomenological analysis (IPA) and three main themes were identified: “you’re baptized into the army,” “them and us,” and “operational mind-set”; each of which comprised a number of superordinate themes. The research highlights that although it is important to acknowledge the heterogenic nature of this group, it is equally important to note that much of their thinking and behavior may be similar to those that have not had these experiences. As such, there is a need to reduce the notion that they are separate and different to other prisoners, requiring different treatment. The study highlights that many of the offending behavior programs and interventions already available to prisoners would be appropriate for this group. The current research supports the merit in creating a service in prisons that will allow ex-servicemen to meet together and access the support that is available to them. The implications of the research are discussed further.
Technical Note: Using k‐means clustering to determine the number and position of isocenters in MLC‐based multiple target intracranial radiosurgery

Abstract Purpose To present the k‐means clustering algorithm as a tool to address treatment planning considerations characteristic of stereotactic radiosurgery using a single isocenter for multiple targets. Methods For 30 patients treated with stereotactic radiosurgery for multiple brain metastases, the geometric centroids and radii of each met were determined from the treatment planning system. In‐house software used this as well as weighted and unweighted versions of the k‐means clustering algorithm to group the targets to be treated with a single isocenter, and to position each isocenter. The algorithm results were evaluated using within‐cluster sum of squares as well as a minimum target coverage metric that considered the effect of target size. Both versions of the algorithm were applied to an example patient to demonstrate the prospective determination of the appropriate number and location of isocenters. Results Both weighted and unweighted versions of the k‐means algorithm were applied successfully to determine the number and position of isocenters. Comparing the two, both the within‐cluster sum of squares metric and the minimum target coverage metric resulting from the unweighted version were less than those from the weighted version. The average magnitudes of the differences were small (−0.2 cm2 and 0.1% for the within cluster sum of squares and minimum target coverage, respectively) but statistically significant (Wilcoxon signed‐rank test, P < 0.01). Conclusions The differences between the versions of the k‐means clustering algorithm represented an advantage of the unweighted version for the within‐cluster sum of squares metric, and an advantage of the weighted version for the minimum target coverage metric. While additional treatment planning considerations have a large influence on the final treatment plan quality, both versions of the k‐means algorithm provide automatic, consistent, quantitative, and objective solutions to the tasks associated with SRS treatment planning using a single isocenter for multiple targets.
Body Weight Management in Adults Under Chronic Stress Through Treatment With Ashwagandha Root Extract

Chronic stress has been associated with a number of illnesses, including obesity. Ashwagandha is a well-known adaptogen and known for reducing stress and anxiety in humans. The objective of this study was to evaluate the safety and efficacy of a standardized root extract of Ashwagandha through a double-blind, randomized, placebo-controlled trial. A total of 52 subjects under chronic stress received either Ashwagandha (300 mg) or placebo twice daily. Primary efficacy measures were Perceived Stress Scale and Food Cravings Questionnaire. Secondary efficacy measures were Oxford Happiness Questionnaire, Three-Factor Eating Questionnaire, serum cortisol, body weight, and body mass index. Each subject was assessed at the start and at 4 and 8 weeks. The treatment with Ashwagandha resulted in significant improvements in primary and secondary measures. Also, the extract was found to be safe and tolerable. The outcome of this study suggests that Ashwagandha root extract can be used for body weight management in adults under chronic stress.
Micaceous Soil Strength And Permeability Improvement Induced By Microbacteria From Vegetable Waste

Green technology method using vegetable waste are introduced in this paper for improvement of phyllite residual soil from UNITEN, Campus. Residual soil from phyllite are known as micaceous soils and it give problem in managing the stability of the slope especially in wet and extensively dry seasons. Micaceous soil are collected using tube sampler technique and mixed with liquid contain microorganism from fermented vegetable waste name as vege-grout to form remolded sample. The remolded sample are classify as 15.0%, 17.5%, 20.00% and 22.5% based on different incremental percentages of vege-grout. The curing time for the sample are 7, 14, 21, 28, and 35 days before the tests were conducted. Observation of the effect of treatment shows 20.0% of liquid contain Bacillus pasteurii and Bacillus Subtilis with 21 days curing time is the optimum value in strengthening the soil and improve the permeability.