Miracle-dz/UniFAR-FTUs huggingface dataset:
Trade‐offs and utility of alternative RADseq methods: Reply to Puritz et al.

Puritz et al. provide a review of several RADseq methodological approaches in response to our ‘Population Genomic Data Analysis’ workshop (Sept 2013) review (Andrews & Luikart 2014). We agree with Puritz et al. on the importance for researchers to thoroughly understand RADseq library preparation and data analysis when choosing an approach for answering their research questions. Some of us are currently using multiple RADseq protocols, and we agree that the different methods may offer advantages in different cases. Our workshop review did not intend to provide a thorough review of RADseq because the workshop covered a broad range of topics within the field of population genomics. Similarly, neither the response of Puritz et al. nor our comments here provide sufficient space to thoroughly review RADseq. Nonetheless, here we address some key points that we find unclear or potentially misleading in their evaluation of techniques.
The Transition from University Completion to Employment for Students with Autism Spectrum Disorder

ABSTRACT A scoping review of articles published from 2000 to 2017 was conducted with the aim to identify what had been discussed and researched related to the transition from completion of university to employment for students with ASD. The review also included identification of published data on the type of degrees studied by university students with ASD. A paucity of discussion and no specific research was identified related to the aims of the review.
Evaluation of a computer-based adverse-drug-event monitor.

PURPOSE The performance of a computer-based adverse-drug-event (ADE) monitor is evaluated, and the characteristics of ADEs detected and undetected by the monitor are compared. METHODS A retrospective analysis was conducted to identify ADEs using pre-defined ADE alerts that were recognized by a computer-based ADE monitor in a 1300-bed, tertiary care, teaching hospital in Seoul, Korea. A subsequent chart review was conducted by a pharmacist to confirm the ADEs and identify ADEs unrecognized by the monitor. The performance of the monitor was evaluated for its sensitivity and positive predictive value in detecting an ADE. The differences in characteristics of ADEs were compared between computer-recognized ADEs and computer-unrecognized ADEs for severity, causality, preventability, associated clinical manifestations, and types of ADEs. RESULTS During a one-month period, a total of 598 patients from two intensive care units and five general wards were monitored to identify ADEs. The computer-based ADE monitor identified 148 ADEs, and the chart review identified 39 computer-unrecognized ADEs. The sensitivity of the computer-based ADE monitor was 79% (148 of 187). The computer-recognized ADEs were more severe than computer-unrecognized ADEs, but there were no statistically significant differences in the causality, preventability, and types of ADEs. The positive predictive value of the computer monitor was 21% (148 of 718). CONCLUSION The computer-based ADE monitor successfully identified most of the ADEs and almost all of the severe ADEs that occurred in the hospitalized patients. However, the accuracy of the computer-based ADE monitor needs to be improved.
Chromatin Structure Regulation in Transforming Growth Factor-β-Directed Epithelial-Mesenchymal Transition

Epithelial-mesenchymal transitions (EMTs) occur in organogenesis throughout embryonic development and are recapitulated during epithelial tissue injury and in carcinoma progression. EMTs are regulated by complex, precisely orchestrated cell signaling and gene expression networks, with the participation of key developmental pathways. Here we review context-dependent modules of gene regulation by hairy/enhancer-of-split-related (H/E(spl)) repressors downstream of transforming growth factor-β (TGF-β)/Smad and Notch signals in EMT and in other phenotype transitions such as differentiation and cancer. Based on multiple models of disease-related EMT, we propose that Polycomb group epigenetic silencers and histone-lysine methyl-transferases EZH1 and EZH2 are candidate targets of H/E(spl)-mediated transcriptional repression, in a process accompanied by replacement of modified core histone H3 with de novo synthesized histone variant H3.3B. Finally, we discuss the potential significance of this scenario for EMT in the light of recent findings on gene regulation by histone modifications and chromatin structure changes.
Using Descriptive Assessment in the Treatment of Bite Acceptance and Food Refusal

The feeding behaviors of two children who maintained failure to thrive diagnoses and displayed food refusal are assessed in their homes. Descriptive assessments are used to identify schedules of consequence provided by each child’s care providers for bite acceptance and food refusal behaviors. Assessments reveal rich schedules of praise and access to social interaction and preferred activities for bite acceptance and escape for food refusal. These schedule arrangements result in hypotheses that modifications to the schedule of praise and access to social interaction and preferred activities for bite acceptance would result in little to no effect and that modifications to the schedule of escape for food refusal would be necessary for treatment success. Successful interventions are subsequently implemented by manipulating the existing schedules of escape for food refusal by each child’s care providers. Implications for the use of descriptive assessments for feeding problems are discussed.
Variability in leaf rust susceptibility among peach cultivars

The aim of this work was to estimate the susceptibility of thirty-six peach cultivars to leaf rust caused by Tranzschelia discolor f. sp. persica. The incidence and severity of the disease as well as defoliation in peach trees of an experimental orchard of Parana Federal University of Technology, Campus Dois Vizinhos were evaluated on the growing seasons 2004/2005 and 2005/2006. Immunity to this disease was not observed in the studied cultivars. There was difference in leaf rust intensity depending on the growing season conditions. Cultivars ‘Pilcha‘, ‘Sinuelo‘, ‘Chirua‘, ‘Sulina‘, ‘Eldorado‘ and ‘Pampeano‘ showed tolerance to leaf rust, whereas cultivars ‘Vila Nova‘, ‘Fla 1372‘, ‘Coral 2‘, ‘Chimarrita‘, ‘Della Nona‘, ‘BR-1‘ and ‘Guaiaca‘ showed high susceptibility.
Flux-Regulation Theories and Principles of Hybrid-Excited Flux-Switching Machines

A hybrid-excited flux-switching (HEFS) machine was proposed by reducing the permanent-magnet (PM) length of an original flux-switching PM machine and introducing a set of field windings into the saved space. According to the PM locations, three typical topologies of HEFS machines emerged, namely, PM-Top, PM-Bottom, and PM-Middle, respectively. The preliminary analysis indicates that different configurations of magnets and field windings have significant influences on the electromagnetic performance of HEFS machines. Hence, this paper is focused on the flux-regulation theories and principles of the three topologies of HEFS machines employing two typical magnet materials, namely, ferrite, and NdFeB, respectively. It is found that the field winding in the PM-Top machine exhibits reversal flux-regulation functions to that in the PM-Bottom one. The weakest flux-regulation capability is found in the PM-Middle one, since this can be considered as a combination of PM-Top and PM-Bottom ones. Overall, the highest magnet utilization and a strongest flux-regulation capability are exhibited in the PM-Bottom HEFS machine. The theoretical analysis is validated by both 2-D finite-element analysis-based predictions and experimental measurements on three prototype HEFS machines.
Low-cost heterogeneous embedded multiprocessor architecture for real-time stream processing applications

SDR applications are often stream processing applications that are computationally intensive which results in a low throughput on homogeneous multi-core architectures and thus could benefit significantly from the use of stream processing accelerators. The integration of stream processing accelerators in an architecture is often facilitated by a NoC. Crossbars or mesh-based NoCs provide guaranteed throughput but tend to have unacceptably high hardware costs. We propose a low-cost heterogeneous multi-processor architecture for real-time stream processing applications together with dataflow models for real-time analysis. This architecture allows compositional temporal dataflow analysis based on independently characterized components. The proposed architecture contains a low-cost ring-shaped interconnect which provides all-to-all guaranteed throughput communication while being work-conserving. Furthermore, cost-effective integration of stream processing accelerators is enabled by combining two low-cost rings and using a small shell in each NI, thereby realizing credit-based hardware flow control for accelerators. To improve the utilization of stream processing accelerators, we propose a sharing approach to multiplex multiple real-time streams of data over accelerators. Data streams between tasks are transferred using our dual-ring interconnect. Software tasks communicate directly using our distributed software FIFO implementation while communication involving stream processing accelerators is handled by our hardware credit-based flow control. In order to reason about the worst-case behavior of our architecture, temporal dataflow models are constructed to obtain bounds on throughput and latency. Three case studies have been carried out to evaluate the hardware costs and performance of the proposed architecture. For these case studies, several instances of the proposed architecture have been implemented on a Xilinx Virtex-6 FPGA. We show that in our architecture the use of accelerators improves maximum throughput by 366% and sharing accelerators can reduce hardware costs by 63%. The results from our case studies show that our ring interconnect has a very small hardware cost and performs within the bounds derived by our dataflow analysis models. We conclude that a considerable reduction of hardware costs can be attained by replacing traditional interconnects by our dual communication ring interconnect. We also conclude that cost-effective shared accelerator integration can improve application performance which demonstrates the merit of our approach.
Compression of nucleic acid and protein sequence data

This paper describes the application of text compression methods to machine-readable files of nucleic acid and protein sequence data. Two main methods are used to reduce the storage requirements of such files, these being n-gram coding and run-length coding. A Pascal program combining both of these techniques resulted in a compression figure of 74.6% for the GenBank data-base and a program that used only n-gram coding gave a compression figure of 42.8% for the Protein Identification Resource database.
On Mapping Homogeneous Graphs on a Linear Array-Processor Model

The authors present a formal model of linear array processors suitable for VLSI implementation as well as graph representation of programs suitable for execution on such a model. A distinction is made between correct mapping and correct execution of such graphs on this model. A complete characterization of the structure of a class of correctly mappable graphs is obtained. The formalism developed is used to synthesize algorithms for this model. 12 references.
Evaluation of cognitive impairment by the Montreal Cognitive Assessment in patients with aneurysmal subarachnoid haemorrhage: prevalence, risk factors and correlations with 3 month outcomes

Objective Identification of patients with aneurysmal subarachnoid haemorrhage (aSAH) with cognitive impairment is important for patient management (medical treatment, cognitive rehabilitation and social arrangements). The Montreal Cognitive Assessment (MoCA) is currently recommended over the Mini-Mental State Examination (MMSE) by the US National Institute of Neurological Disorder, in the chronic post-stroke setting. We hypothesised that the MoCA has a better correlation with functional outcome at 3 months than the MMSE. Methods We carried out a prospective observational study in Hong Kong over a 2 year period, recruiting patients aged 21–75 years with aSAH admitted within 96 h of ictus. The assessments included the modified Rankin Scale, Lawton Instrumental Activity of Daily Living (IADL), Short Form-36, MoCA and MMSE at 3 months after ictus. Analyses were carried out to compare MoCA with MMSE. Results 90 patients completed the 3 month assessments. Cognitive impairment (MoCA <26) was determined in 73% of patients at 3 months. Delayed cerebral infarction explained the 31–38% variance in cognitive outcomes (MMSE and MoCA) at 3 months. MoCA demonstrated good discrimination of favourable neurological and IADL outcomes similar to the MMSE in receiver operating characteristics curve analyses. Conclusions MoCA defined cognitive impairment was common at 3 months after aSAH and MoCA correlated with functional outcomes similar, but not superior, to the MMSE. The study is registered at ClinicalTrials.gov of the US National Institutes of Health (NCT01038193).
Balancing a Changed Life Situation: The Lived Experience From Next of Kin to Persons With Inoperable Lung Cancer

The purpose of this study was to identify and describe the experiences of quality of life/life situation among those who were next of kin to persons with inoperable lung cancer. Data were collected in qualitative interviews, where 11 next of kin articulated their lived experiences, and were interpreted through interpretive phenomenology. Four themes were identified: changed life situation, experiences of uncertainty due to awareness of the ill person’s changed health status, interpersonal relationships, and false hopes due to health care professionals’ treatment. These four themes gave a structure presenting the essence: balancing a changed life situation. The findings of the study point out the importance of promoting support for the next of kin, because they are significantly affected by the changed life situation. There is a need to identify their needs and to support them.
M-ary Signals in UWB MIMO System Using Orthogonal Space Time Block Codes

Ultra Wideband (UWB) communication system and MIMO transmission technique recently have attracted much attention. Space time block coding combines with UWB M-ary PSK and M-QAM modulation schemes for the use of multiple transmit antennas providing a simple transmit diversity scheme with the same diversity order as maximal ratio receiver combing. Using the equivalent single input single out (SISO) model, we present a closed form expression for the exact symbol error rate (SER) of orthogonal space time block codes (STBCs) over UWB flat Nakagami-m models.
A Novel Electro-Thermal Laminated Ceramic with Carbon-Based Layer

A novel electro-thermal laminated ceramic composed of ceramic tile, carbon-based layer, dielectric layer, and foaming ceramic layer was designed and prepared by tape casting. The surface temperature achieved at an applied voltage of 10 V by the laminated ceramics was 40.3 °C when the thickness of carbon-based suspension was 1.0 mm and the adhesive strength between ceramic tile and carbon-based layer was 1.02 ± 0.06 MPa. In addition, the thermal aging results at 100 °C up to 192 h confirmed the high thermal stability and reliability of the electro-thermal laminated ceramics. The development of this laminated ceramic with excellent electro-thermal properties and safety provides a new individual heating device which is highly expected to be widely applied in the field of indoor heat supply.
Power and performance comparison of crossbars and buses as on-chip interconnect structures

Traditionally, buses have been traditionally used as datapath interconnects because of their simplicity. Yet, as technology quickly scales down and the industry embraces systems-on-a-chip (SoC), the increasing global interconnect delay and chip power consumption become big concerns, and alternative datapath interconnect structures should be considered. This paper evaluates two datapath interconnection alternatives-full connection crossbars and multiple-input/output-port buses-at the transistor level and compares their power and delay performances. The results show that although a full connection crossbar consumes more energy per cycle and incurs larger delays than buses, crossbars consume less energy per data transfer when the number of input/output ports is small and the crossbar operates in full parallelism. This makes crossbars a good choice for connecting components and transferring parallel data in SoC designs.
Functionalization of Hydrocolloids: Principal Component Analysis Applied to the Study of Correlations Between Parameters Describing the Consistency of Hydrogels

This work was part of a pure research project on the functionalization of three families of hydrocolloids: cellulose derivatives, carrageenates, and alginates. Principal component analysis (PCA), a powerful statistical method, was used to demonstrate the relations existing among these different parameters that describe the consistency of hydrogels and their spreadability. This approach therefore provides a basis for modeling hydrogel consistency. PCA also afforded a classification of hydrogels that demonstrated the remarkable adhesiveness of very stiff gels based on cellulose derivatives and sodium or potassium alginates. The corresponding semifluid gels and all the gels based on carrageenates and mixed sodium-calcium alginates, whatever their spreadability, were found to be very poorly adhesive. Generalized to all the many colloids currently marketed, this approach can be used to set up a databank for the formulation of mucoadhesive excipients.
Cluster ensemble for gene expression microarray data

Ensemble techniques have been successfully applied in the context of supervised learning to increase the accuracy and stability of classification. Recently, similar techniques have been proposed for clustering algorithms. In this context, we analyze the potential of applying cluster ensemble techniques to gene expression microarray data. Our experimental results show that there is often a significant improvement in the results obtained with the use of ensemble when compared to those based on the clustering techniques used individually.
Affective Response to a Set of New Musical Stimuli

Recently, a novel set of musical stimuli was developed in an attempt to bring more rigor to a paradigm which often falls under scientific scrutiny. Although these musical clips were validated in terms of recognition for emotion, valence, and arousal, the clips were not specifically tested for their ability to elicit certain affective responses. The present study examined self-reported “elation” among 82 participants after listening to one of two types of the musical clips; 47 listened to happy music and 35 listened to sad music. Individuals who listened to happy music reported significantly higher “elation” than individuals who listened to the sad music. These results support the idea that music can elicit certain affective state responses.
Progression of articular and extraarticular damage in oligoarticular juvenile idiopathic arthritis.

OBJECTIVES Evaluate damage in oligoarticular JIA, estimating its frequency, risks and probability over time. METHODS A cross-sectional and retrospective analysis of Juvenile Arthritis Damage Index (JADI) scoring, with both articular and extraarticular components, active joint count, disability index by CHAQ and Steinbrocker class, physician's global assessment, child's pain and overall well-being visual analogue scale (VAS), was conducted in patients with oligoarticular JIA. Damage risk factors were estimated by univariate analysis and by generalised linear model. The probability of damage over time was estimated by survival analysis and damage progression rates were calculated by hazard function. RESULTS Seventy-five JIA cases were assessed, 89.3% persistent and 10.7% extended oligoarthritis, with median follow-up duration 1.7 years (IQR 1.3-3.1). Damage occurred in 38.7%. JADI-A correlated moderately only with the number of limited joints (rs= 0.50, p<0.0001). Female sex (OR 3.5, 95% CI 1.0-11.6), DMARD use (OR 3.9, 95%CI 1.0-15.0) and knee involvement (OR 4.2, 95%CI 1.3-13.5) were significantly associated with joint damage, whereas only joint steroid injection was associated with extraarticular damage (OR 5.9, 95% CI 1.8-19.3). Damage probability at 5 years was 50% for JADI-A, and 57% for JADI-E. Calculated hazard rates each year were 16.1% and 16.3%, for JADI-A and JADI-E, respectively. CONCLUSIONS Sex, DMARD use and knee involvement were associated with joint damage, whereas only joint steroid injection was associated with extraarticular damage, which progressed at stable rates over ten years.
Therapeutic Effects of Bacteriophage Cpl-1 Lysin against Streptococcus pneumoniae Endocarditis in Rats

ABSTRACT Cpl-1, a pneumococcal phage lytic enzyme, was tested in rats with experimental endocarditis due to Streptococcus pneumoniae WB4. High-dose regimen Cpl-1 eliminated pneumococci from blood within 30 min and decreased bacterial titers in vegetations (>4 log10 CFU/g) within 2 h. Rapid bacterial lysis induced by Cpl-1 treatment increased cytokine secretion noticeably.
Perceived Benefits and Barriers to Physical Activity among Older Latina Women

Evidence of the benefits of physical activity in the health of aging women continues to grow, but questions remain about the factors that influence these women’s ability to engage in this behavior. The authors used a qualitative design to describe the social and culture-specific perceived benefits and barriers to physical activity among 143 Latina women, ages 40 to 79. Content analysis of these women’s responses revealed that perceived benefits (health promotion, physical fitness, improved roles) and barriers (time constraints of women’s roles, personal health, internal and external factors) function as competing elements that may explain physical inactivity. Health care providers should emphasize overcoming barriers and promote perceived benefits as clinical interventions that may pose the greatest potential to increase physical activity among aging Latina women. This emphasis holds promise as a feasible and effective primary care intervention for achieving increased physical-activity-related health benefits.
The usability expert's fear of agility: an empirical study of global trends and emerging practices

This paper contributes to the HCI literature on usability practice with insights about the empirical challenges and global emerging practices caused by the advent of agile software development (ASD). In the paper we report from a worldwide study involving 12 usability professionals from 12 different countries. The findings show that the usability professionals share a forced development and innovation in their practice that stem from their clients' adoption and use of ASD methods. The ASD methods challenge the way usability testing is performed, the abilities of the usability expert, the usability deliverables, and the experts' assumptions about the importance of validity.