LLukas22/scidocs huggingface dataset:
A maximum-likelihood parametric approach to source localizations

Source localization using passive sensor arrays has been an active research problem for many years. Most near-field source localization algorithms involve two separate estimations, namely, relative time-delay estimations and source location estimation. In this paper, a one-step maximum-likelihood parametric source localization algorithm is proposed based on the maximum correlation between time shifted sensor data at the true source location. The performance of the algorithm is evaluated and shown to approach the Cramér-Rao bound asymtotically in simulations.
Effect of autoclave sterilization on the cyclic fatigue resistance of thermally treated Nickel-Titanium instruments.

AIM
To compare the cyclic fatigue resistance of HyFlex CM, Twisted Files (TF), K3XF, Race, and K3, and evaluate the effect of autoclave sterilization on the cyclic fatigue resistance of these instruments both before and after the files were cycled.


METHODOLOGY
Five types of NiTi instruments with similar size 30, .06 taper were selected: HyFlex CM, TF, K3XF, Race and K3. Files were tested in a simulated canal with a curvature of 60° and a radius of 3 mm. The number of cycles to failure of each instrument was determined to evaluate cyclic fatigue resistance. Each type of instruments was randomly divided into four experimental groups: group 1 (n = 20), unsterilized instruments; group 2 (n = 20), pre-sterilized instruments subjected to 10 cycles of autoclave sterilization; group 3 (n = 20), instruments tested were sterilized at 25%, 50% and 75% of the mean cycles to failure as determined in group 1, and then cycled to failure; group 4 (n = 20), instruments cycled in the same manner as group 3 but without sterilization. The fracture surfaces of instruments were examined by scanning electron microscopy (SEM).


RESULTS
HyFlex CM, TF and K3XF had significantly higher cyclic fatigue resistance than Race and K3 in the unsterilized group 1 (P < 0.05). Autoclave sterilization significantly increased the MCF of HyFlex CM and K3XF (P < 0.05) both before and after the files were cycled. SEM examination revealed a typical pattern of cyclic fatigue fracture in all instruments.


CONCLUSIONS
HyFlex CM, TF and K3XF instruments composed of new thermal-treated alloy were more resistant to fatigue failure than Race and K3. Autoclaving extended the cyclic fatigue life of HyFlex CM and K3XF.
ADAM and ADAMTS family proteins and their role in the colorectal cancer etiopathogenesis

The ADAM and ADAMTS families, also called adamalysins belong to an important group of extracellular matrix proteins. The ADAMs family belong to both the transmembrane and secreted proteins, while ADAMTS family only contains secreted forms. Adamalysins play an important role in the cell phenotype regulation via their activities in signaling pathways, cell adhesion and migration. The human proteome contains 21 ADAM, and 19 ADAMTS proteins, which are involved in extracellular matrix remodeling, shedding of various substrates such as: adhesion ligands, growth factors, their receptors and diverse cytokines. Recent studies provide evidence that adamalysins play a crucial role in colorectal cancer (CRC) etiopathogenesis. It seems possible that adamalysins might be used as CRC prediction markers or potential pharmaceutical targets.
Mechanical Properties of Titanium Implanted Polycrystalline Alumina and Sapphire Determined by Nanoindentation

Abstract The effects of titanium ion implantation on structural and mechanical properties of single crystal and polycrystalline α-alumina were studied. Grazing angle X-ray diffraction (GXRD) allowed the identification of structural alterations. Surface morphology was observed directly using scanning electron microscopy (SEM), elastic and plastic properties of the implanted layers (of which the thickness is about 100 nm) have been characterised by microprobe investigation. Results of the hardness and Young’s modulus, determined by nanoindentation technique and the physicochemical study, have allowed us to correlate elastic and plastic property modifications with microstructure state of implanted ceramics and after annealing. Ion implantation plus thermal annealing were found to be favourable for the improvement of mechanical properties.
Age- and gender-specific mortality rates in childhood hypertrophic cardiomyopathy.

AIMS
Hypertrophic cardiomyopathy (HCM) is the commonest inherited cause of sudden cardiac death in children; current guidelines suggest HCM screening after 12-15 years of age. The study aims to establish the age range at highest risk.


METHODS AND RESULTS
Cohort study from six regional centres of paediatric cardiology, including children presenting with sudden death; n = 150 (59% = male; 39% familial HCM). Age- and gender-specific mortality was calculated, and compared with rates calculated from the Swedish National Cause of Death Registry. There were 56 deaths within the cohort, 39 were sudden arrhythmia deaths, with 31 at <19 years of age. Between 9-13.9 years of age annual sudden death mortality averages 7.2%, vs. 1.7% after 16 years of age; P = 0.025, odds ratio for proportions 3.75 [95% confidence intervals (CI) 1.18-11.91], similar in both familial and idiopathic HCM. The risk for sudden death peaks earlier in girls (10-11 years), with male preponderance after the age of 15. National cause of death statistics confirm that the mortality rate from HCM is significantly higher in the 8-16 year olds (0.112 per 100,000 age-specific population) than in the 17-30 year olds (0.055 per 100,000; 95% CI 0.011-0.099).


CONCLUSION
In families with HCM, children should be screened at an early age.
Validation of a questionnaire for assessment of asthma patient knowledge and behaviour.

BACKGROUND
For several years, educational programmes have been highlighted because care success depends on patient's knowledge and patient's asthma management. However, no tool is available to assess change in patient knowledge and behaviour before and after completing an educational programme.


OBJECTIVE
To validate a questionnaire measuring the knowledge and behaviour of asthmatics participating in an educational programme and to gauge the benefit of such a programme.


METHODS
The Asthma Behaviour Change (ABC) questionnaire was generated from literature, patient surveys and clinical situations. It was organized in eight dimensions assessing patient behaviour in seven different clinical situations and two assessing patient (pathophysiology and therapeutic) knowledge. A total of 139 asthmatics filled out the questionnaire before, during and after the educational programme.


RESULTS
The principal component analysis confirmed the structure empirically made by clinical situations. Internal consistency analysis yielded high Cronbach's alpha values. Different dimensions and the two global scores were able to discriminate patients according to asthma severity. Finally, the effect size of difference before and after educational programme was at least 0.47, and was larger than 0.74 for both global behaviour and knowledge scores. The difference between visit 1 and 3 for global behaviour and knowledge scores reached 18.84 +/- 20.83 (P < 0.001, 95% CI: 13.18-24.43) and 11.06 +/- 14.98 (P < 0.001, 95% CI: 7.10-15.03), respectively.


CONCLUSION
ABC questionnaire is a valid tool to assess asthmatics' knowledge and behaviour. Furthermore, this study confirmed that educational programmes lead to better awareness of asthma by patients.
Swing sound: experiencing the golf swing through sound

SwingSound is a system that creates an audio mirror of your golf swing in real time, in order to explore various dimensions of interaction design in sports, such as feedback, representation, and multimodality. At CHI interactivity we will allow the audience to practically try out this system by hitting golf balls into a net, thereby re-experiencing their golf swing in a new modality.
Safety of discontinuing cotrimoxazole prophylaxis among HIV infected adults on anti-retroviral therapy in Uganda (COSTOP trial): Design

INTRODUCTION
Cotrimoxazole (CTX) prophylaxis is recommended by the World Health Organisation for HIV infected persons. However, once HIV infected patients have commenced ART in resource limited settings, the benefits of continued CTX prophylaxis are not known. The few studies that investigated the safety of discontinuing CTX prophylaxis in these settings had limitations due to their design.


MATERIALS AND METHODS
COSTOP is a randomised double blind placebo controlled non-inferiority trial among HIV infected Ugandan adults stabilised on anti-retroviral treatment (ART). Participants with CD4 count of 250 or more cells/mm(3) are randomised to two arms: the intervention arm in which CTX is discontinued and the control arm in which CTX prophylaxis is continued. The study aims to assess whether the intervention regimen is not inferior, with respect to the incidence of pre-defined CTX-preventable events, to the control regimen and superior with respect to the incidence of haematological adverse events.


DISCUSSION
Studies that have previously evaluated the safety of discontinuing CTX prophylaxis among HIV infected adults in resource limited settings have provided moderate to low quality evidence owing in part to methodological limitations. COSTOP is designed and conducted with sufficient rigour to answer this question. The results of the trial will assist in guiding policy recommendations.


CONCLUSION
This paper describes the design and methodological considerations important for the conduct of CTX cessation studies.
New Fingerprint Image Enhancement Using Directional Filter Bank

This paper describes a new method of directional filter-based analysis for fingerprint enhancement. Fingerprint images can be represented by a directional field of regular structure of ridge patterns. The dominant directional component of ridge plays a very important role in the pre-processing steps of fingerprint image analysis such as ridge's linking and noise removal for minutiae extraction. A directional filter bank analyzes an input image into directional subband images and synthesizes them to the perfectly reconstructed image. In this paper, a new fingerprint enhancement algorithm based on a directional filter bank is proposed. The algorithm decomposes a fingerprint image into directional subband images in the analysis stage, processes the subband images in the processing stage, and reconstructs them as the enhanced image in the synthesis stage. The experiment results show that the proposed method reduces the influence of noise on the ridges and valleys, enhances the ridge’s moving shape, and preserves the spatial characteristics at minutiae and singular points.
Dose equivalence and bronchoprotective effects of salmeterol and salbutamol in asthma.

BACKGROUND
Salbutamol is the most widely prescribed short acting beta 2 agonist and salmeterol is the first long acting inhaled beta 2 agonist. The dose equivalence of salmeterol and salbutamol is disputed. Estimates of weight-for-weight dose ratio have ranged from 1:2 to 1:16. A study was undertaken to clarify the true dose ratio.


METHODS
The bronchoprotection afforded against repeated methacholine challenge by inhaled salmeterol 25 micrograms and 100 micrograms and salbutamol 100 micrograms and 400 micrograms was compared in a randomised, double blind, placebo controlled, crossover trial. Subjects were 16 stable asthmatics with a baseline forced expiratory volume in one second (FEV1) of > or = 65% predicted, screening concentration provoking a fall in FEV1 of 20% (PC20FEV1) of < or = 8mg/ml, and a shift in PC20FEV1 of more than two doubling concentration steps following inhalation of salbutamol 400 micrograms. On five separate occasions subjects underwent methacholine challenge before and 30 and 120 minutes after drug administration. PD20FEV1 was calculated for each challenge. FEV1 at 90 minutes after drug administration was also recorded.


RESULTS
Bronchoprotection afforded by salmeterol was increased at 120 minutes compared with 30 minutes and protection by salbutamol was decreased. Protection by both doses of salmeterol was similar to salbutamol 100 micrograms at 30 minutes but significantly greater at 120 minutes. FEV1 at 90 minutes was significantly greater after salmeterol 100 micrograms than after placebo, but there were no other significant differences between treatments. Maximal observed protection was equivalent for salmeterol 100 micrograms and salbutamol 400 micrograms.


CONCLUSIONS
The data are compatible with a weight-for-weight dose ratio for salmeterol:salbutamol of < or = 1:4.
Spatio-temporal interest points for video analysis

In this paper, we discuss the need for an effective representation of video data to aid analysis of large datasets of video clips and describe a prototype developed to explore the use of spatio-temporal interest points for action recognition. Our focus is on ways that computation can assist analysis.
DeepSynergy: predicting anti-cancer drug synergy with Deep Learning

Motivation
While drug combination therapies are a well-established concept in cancer treatment, identifying novel synergistic combinations is challenging due to the size of combinatorial space. However, computational approaches have emerged as a time- and cost-efficient way to prioritize combinations to test, based on recently available large-scale combination screening data. Recently, Deep Learning has had an impact in many research areas by achieving new state-of-the-art model performance. However, Deep Learning has not yet been applied to drug synergy prediction, which is the approach we present here, termed DeepSynergy. DeepSynergy uses chemical and genomic information as input information, a normalization strategy to account for input data heterogeneity, and conical layers to model drug synergies.


Results
DeepSynergy was compared to other machine learning methods such as Gradient Boosting Machines, Random Forests, Support Vector Machines and Elastic Nets on the largest publicly available synergy dataset with respect to mean squared error. DeepSynergy significantly outperformed the other methods with an improvement of 7.2% over the second best method at the prediction of novel drug combinations within the space of explored drugs and cell lines. At this task, the mean Pearson correlation coefficient between the measured and the predicted values of DeepSynergy was 0.73. Applying DeepSynergy for classification of these novel drug combinations resulted in a high predictive performance of an AUC of 0.90. Furthermore, we found that all compared methods exhibit low predictive performance when extrapolating to unexplored drugs or cell lines, which we suggest is due to limitations in the size and diversity of the dataset. We envision that DeepSynergy could be a valuable tool for selecting novel synergistic drug combinations.


Availability and implementation
DeepSynergy is available via www.bioinf.jku.at/software/DeepSynergy.


Contact
klambauer@bioinf.jku.at.


Supplementary information
Supplementary data are available at Bioinformatics online.
Influence of cytochrome P 450 polymorphisms on drug therapies : Pharmacogenetic , pharmacoepigenetic and clinical aspects

The polymorphic nature of the cytochrome P450 (CYP) genes affects individual drug response and adverse reactions to a great extent. This variation includes copy number variants (CNV), missense mutations, insertions and deletions, and mutations affecting gene expression and activity of mainly CYP2A6,CYP2B6, CYP2C9, CYP2C19 andCYP2D6,which have been extensively studied andwell characterized. CYP1A2 andCYP3A4 expression varies significantly, and the cause has been suggested to bemainly of genetic origin but the exact molecular basis remains unknown.We present a review of the major polymorphic CYP alleles and conclude that this variability is of greatest importance for treatment with several antidepressants, antipsychotics, antiulcer drugs, anti-HIV drugs, anticoagulants, antidiabetics and the anticancer drug tamoxifen. We also present tables illustrating the relative importance of specific common CYP alleles for the extent of enzyme functionality. The field of pharmacoepigenetics has just opened, and we present recent examples wherein gene methylation influences the expression of CYP. In addition microRNA (miRNA) regulation of P450 has been described. Furthermore, this review updates the fieldwith respect to regulatory initiatives and experience of predictive pharmacogenetic investigations in the clinics. It is concluded that the pharmacogenetic knowledge regarding CYP polymorphism now developed to a stage where it can be implemented in drug development and in clinical routine for specific drug treatments, thereby improving the drug response and reducing costs for drug treatment. © 2007 Elsevier Inc. All rights reserved.
The Validation of the Chinese Version of the Swallow Quality-of-Life Questionnaire (SWAL-QOL) Using Exploratory and Confirmatory Factor Analysis

The aim of this work was to study the psychometric properties of the Chinese version of the Swallow Quality-of-Life Questionnaire (CSWAL-QOL) validated in the Hong Kong Chinese-speaking population. With convenience sampling, a cross-sectional survey was launched to evaluate the validity and reliability of the CSWAL-QOL. One hundred subjects with swallowing problems were recruited to evaluate the construct validity and internal consistency, and 20 subjects were recruited for the test–retest reliability. Construct validity was validated through factor analysis (both exploratory and confirmatory) and a correlation study between the CSWAL-QOL and the World Health Organization Quality-of-Life Questionnaire—abbreviated version [WHOQOL-BREF (HK)]. Reliability was estimated using tests of internal consistency and test–retest reliability. The psychometric properties of the CSWAL-QOL were found to be largely similar to those of the SWAL-QOL, except the three-item eating desire scale of the CSWAL-QOL, which showed insignificant results in the validity and reliability tests. The CSWAL-QOL is the first validated Chinese version of the SWAL-QOL in Hong Kong. It is a clinically valid and reliable tool for assessing the quality of life in dysphagic Chinese patients in Hong Kong, regardless of the causes of dysphagia.
Home based telemedicine intervention for patients with uncontrolled hypertension: - a real life - non-randomized study

BACKGROUND
Control of blood pressure is frequently inadequate in spite of availability of several classes of well tolerated and effective antihypertensive drugs. Several factors, including the use of suboptimal doses of drugs, inadequate or ineffective treatments and poor drug compliance may be the reason for this phenomenon. The aim of the current non- randomized study was to evaluate the effectiveness of a Home-Based Telemedicine service in patients with uncontrolled hypertension.


METHODS
74 patients were enrolled in a Home Based Telemedicine group and 94 patients in the Usual Care group. At baseline and at the end of the study, patients in both groups were seen in a cardiology office. Patients in Home Based Telemedicine group additionally were followed by a physician-nurse, through scheduled and unscheduled telephone appointments. These patients also received a blood pressure measuring device that could transmit the readings to a central data monitor via secure data connection.


RESULTS
During the study period (80 ± 25 days), a total of 17401 blood pressure measurements were taken in the Home Based Telemedicine group corresponding to 236 ± 136 readings per patient and a mean daily measurement of 3 ± 1.7. The scheduled telephone contacts (initiated by the nurse) equaled to 5.2 ± 4.3/patient (370 in total) and the unscheduled telephone contacts (initiated by the patients) were 0.4 ± 0.9/patient (30 in total). The mean systolic blood pressure values decreased from 153 ± 19 mmHg to 130 ± 15 mmHg (p < 0.0001) at the end of the study and diastolic blood pressure values decreased from 89 ± 10 mmHg to 76 ± 11 mmHg (p < 0.0001). In the Usual Care group, the mean systolic blood pressure values decreased from 156 ± 16 mmHg to 149 ± 17 mmHg (p < 0.05) at the end of the study and diastolic blood pressure values decreased from 90 ± 8 mmHg to 86 ± 9 mmHg (p < 0.05). The changes in drug therapy initiated following telephone contacts were 1.81 ± 1.73 per patient.


CONCLUSIONS
The addition of a structured physician-nurse approach supported by remote telemonitoring of blood pressure is likely to improve outcome in patients with uncontrolled hypertension.
A Novel Distributed Clustering Algorithm for Mobile Ad-hoc Networks

This paper proposed a new Distributed Score Based Clustering Algorithm (DSBCA) for Mobile Ad-hoc Networks (MANETs).In MANETs, select suitable nodes in clusters as cluster heads are so important. The proposed Clustering Algorithm considers the Battery Remaining, Number of Neighbors, Number of Members, and Stability in order to calculate the node’s score with a linear algorithm. After each node calculates its score independently, the neighbors of the node must be notified about it. Also each node selects one of its neighbors with the highest score to be its cluster head and, therefore the selection of cluster heads is performed in a distributed manner with most recent information about current status of neighbor nodes. The proposed algorithm was compared with Weighted Clustering Algorithm and Distributed Weighted Clustering Algorithm in terms of number of clusters, number of re-affiliations, lifespan of nodes in the system, end-to-end throughput and overhead. The simulation results proved that the proposed algorithm has achieved the goals.
A Review of AI-Supported Tutoring Approaches for Learning Programming

In this paper, we review tutoring approaches of computersupported systems for learning programming. From the survey we have learned three lessons. First, various AI-supported tutoring approaches have been developed and most existing systems use a feedback-based tutoring approach for supporting students. Second, the AI techniques deployed to support feedback-based tutoring approaches are able to identify the student’s intention, i.e. the solution strategy implemented in the student solution. Third, most reviewed tutoring approaches only support individual learning. In order to fill this research gap, we propose an approach to pair learning which supports two students who solve a programming problem face-to-face.
Lung sound analysis can be an index of the control of bronchial asthma.

BACKGROUND
We assessed whether lung sound analysis (LSA) is a valid measure of airway obstruction and inflammation in patients with bronchial asthma during treatment with inhaled corticosteroids (ICSs).


METHODS
63 good adherence patients with bronchial asthma and 18 poor adherence patients were examined by LSA, spirometry, fractional exhaled nitric oxide (FeNO), and induced sputum. The expiration-to-inspiration lung sound power ratio at low frequencies between 100 and 200 Hz (E/I LF) obtained by LSA was compared between healthy volunteers and bronchial asthma patients. Next, post-ICS treatment changes were compared in bronchial asthma patients between the good adherence patients and the poor adherence patients.


RESULTS
E/I LF was significantly higher in bronchial asthma patients (0.62 ± 0.21) than in healthy volunteers (0.44 ± 0.12, p < 0.001). The good adherence patients demonstrated a significant reduction in E/I LF from pre-treatment to post-treatment (0.55 ± 0.21 to 0.46 ± 0.16, p = 0.002), whereas the poor adherence patients did not show a significant change. The decrease of E/I LF correlated with the improvement of FEV1/FVC ratio during the ICS treatment (r = -0.26, p = 0.04). The subjects with higher pre-treatment E/I LF values had significantly lower FEV1/FVC and V50,%pred (p < 0.001), and significantly higher FeNO and sputum eosinophil percentages (p = 0.008 and p < 0.001, respectively).


CONCLUSIONS
The E/I LF measurement obtained by LSA is useful as an indicator of changes in airway obstruction and inflammation and can be used for monitoring the therapeutic course of bronchial asthma patients.