Miracle-dz/UniFAR-FTUs huggingface dataset:
On the Temporal Stability of Analyte Recognition with an E-Nose Based on a Metal Oxide Sensor Array in Practical Applications

The paper deals with a functional instability of electronic nose (e-nose) units which significantly limits their real-life applications. Here we demonstrate how to approach this issue with example of an e-nose based on a metal oxide sensor array developed at the Karlsruhe Institute of Technology (Germany). We consider the instability of e-nose operation at different time scales ranging from minutes to many years. To test the e-nose we employ open-air and headspace sampling of analyte odors. The multivariate recognition algorithm to process the multisensor array signals is based on the linear discriminant analysis method. Accounting for the received results, we argue that the stability of device operation is mostly affected by accidental changes in the ambient air composition. To overcome instabilities, we introduce the add-training procedure which is found to successfully manage both the temporal changes of ambient and the drift of multisensor array properties, even long-term. The method can be easily implemented in practical applications of e-noses and improve prospects for device marketing.
Adverse outcomes in patients with atrial fibrillation and peripheral arterial disease: a report from the EURObservational research programme pilot survey on atrial fibrillation

Aims Peripheral arterial disease (PAD) is highly prevalent in general population. Data on the prevalence of symptomatic PAD in patients with atrial fibrillation (AF) are limited, and the impact of PAD on adverse outcomes in AF patients is controversial. Our aims were: (i) to define the prevalence of symptomatic PAD in European AF patients and describe its associated clinical risk factors and (ii) to establish the relationship of PAD to adverse events in AF, especially all-cause death. Methods and results Atrial fibrillation patients enrolled in the EORP-AF Pilot study with data about PAD status were included in this analysis. Event rates were determined at 1-year follow-up. Peripheral arterial disease was recorded in 328 (11%) patients. Age (P < 0.0001), hypertension (P = 0.0059), diabetes mellitus (P = 0.0001), chronic heart failure (P < 0.0001), previous stroke/transient ischaemic attack (P = 0.0060), and antiplatelet drug treatment (P = 0.0001) were associated with the presence of PAD, while female gender was inversely associated (P = 0.0002). Peripheral arterial disease patients had higher absolute rates of both cardiovascular (CV) and all-cause death (both P < 0.0001). On Kaplan-Meier analysis, risk of all-cause death was higher in PAD patients compared with those without PAD (P < 0.0001), but PAD did not emerge as an independent risk factor for mortality on Cox regression analysis. A lower risk of all-cause death was associated with the prescription of statins (P = 0.0019), angiotensin-converting enzyme inhibitors (P = 0.0008), and calcium-channel blockers (P = 0.0071). Conclusion Peripheral arterial disease is prevalent in 11% of AF patients and related to various atherosclerotic risk factors. Even if PAD is associated with higher risk of all-cause death on univariate analysis, this risk was significantly lowered and was no longer evident after adjusting for the use of CV prevention drugs.
CausalR: extracting mechanistic sense from genome scale data

Summary Utilization of causal interaction data enables mechanistic rather than descriptive interpretation of genome‐scale data. Here we present CausalR, the first open source causal network analysis platform. Implemented functions enable regulator prediction and network reconstruction, with network and annotation files created for visualization in Cytoscape. False positives are limited using the introduced Sequential Causal Analysis of Networks approach. Availability and implementation CausalR is implemented in R, parallelized, and is available from Bioconductor Contact glyn.x. bradley@gsk.com Supplementary information Supplementary data are available at Bioinformatics online.
Transcranial measurement of cerebral microembolic signals during left-sided catheter ablation with the use of different approaches- the potential microembolic risk of a transseptal approach

Aims Subclinical brain damage due to microembolization could occur during catheter ablation procedures. We evaluated the microembolic signals (MESs) detected by transcranial Doppler during ablation of supraventricular tachycardias (SVTs) or idiopathic ventricular arrhythmias (VAs) with the use of different approaches. Methods and results This study included 36 patients (23 men, 49 ± 21 years) who underwent catheter ablation of SVTs (n = 27) or idiopathic VAs (n = 9). Left-sided ablation was performed by either a transaortic (Group 1, n = 11) or transseptal approach (Group 2, n = 9). A sole right-sided ablation was performed in the remaining 16 patients (Group 3). The MESs were counted throughout the procedure, and then analysed offline with a frequency analysis. The mean number of radiofrequency applications, total energy delivery time, total application energy, and total procedure time were 5.8 ± 5.0, 4.3 ± 3.3 min, 6625 ± 4633 J, and 81 ± 40 min, respectively, and there was no significant difference in the parameters between the three groups. The mean total number of MESs was 3.8 ± 3.1 in Group 1, 75 ± 58 in Group 2, and 0.3 ± 0.6 in Group 3 (P = 0.001). Few MESs were detectable during the radiofrequency energy deliveries in all groups. In Group 2, 19 ± 18 MESs were detected during the transseptal puncture period, and subsequently a relatively even distribution of emboli formation was observed. A frequency analysis suggested that 99, 91, and 100% of MESs were gaseous, in Group 1, Group 2, and Group 3, respectively. No neurological impairment was observed in any patients after the procedure. Conclusion The retrograde aortic approach might potentially have a lower risk of subclinical brain damage than the transseptal approach during left-sided catheter ablation.
NK cells inhibit anti‐Mycobacterium bovis BCG T cell responses and aggravate pulmonary inflammation in a direct lung infection mouse model

Tuberculosis remains a threat to public health. The major problem for curing this disease is latent infection, of which the underlying mechanisms are still not fully understood. Previous studies indicate that natural killer (NK) cells do not play a role in inhibiting the growth of Mycobacterium tuberculosis in the lung, and recent studies have revealed that NK cells regulate the adaptive immunity during mycobacterial infection. By using a mouse model of direct lung infection with Mycobacterium bovis bacillus Calmette‐Guerin (BCG), we found that the presence of NK cells postponed the priming and activation of T cells after BCG infection. In addition, depletion of NK cells before infection alleviated pulmonary pathology. Further studies showed that NK cells lysed BCG‐infected macrophages in an NKG2D dependent manner. Thus, NK cells did not play a direct role in control BCG, but aggravated the pulmonary inflammation and impaired anti‐BCG T cell immunity, likely through killing BCG‐infected macrophages. Our results may have important implications for the design of immune therapy to treat tuberculosis.
Purkinje Cell Protein 4 Expression Is Associated With DNA Methylation Status in Aldosterone-Producing Adenoma

Context Aldosterone production is stimulated by activation of calcium signaling in aldosterone-producing adenomas (APAs), and epigenetic factors such as DNA methylation may be associated with the expression of genes involved in aldosterone regulation. Objective Our aim was to investigate the DNA methylation of genes related to calcium signaling cascades in APAs and the association of mutations in genes linked to APAs with DNA methylation levels. Methods Nonfunctioning adrenocortical adenoma (n = 12) and APA (n = 35) samples were analyzed. The KCNJ5 T158A mutation was introduced into human adrenocortical cell lines (HAC15 cells) using lentiviral delivery. DNA methylation array analysis was conducted using adrenal tumor samples and HAC15 cells. Results The Purkinje cell protein 4 (PCP4) gene was one of the most hypomethylated in APAs. DNA methylation levels in two sites of PCP4 showed a significant inverse correlation with messenger RNA expression in adrenal tumors. Bioinformatics and multiple regression analysis revealed that CCAAT/enhancer binding protein alpha (CEBPA) may bind to the methylation site of the PCP4 promoter. According to chromatin immunoprecipitation assay, CEBPA was bound to the PCP4 hypomethylated region by chromatin immunoprecipitation assay. There were no significant differences in PCP4 methylation levels among APA genotypes. Moreover, KCNJ5 T158A did not influence PCP4 methylation levels in HAC15 cells. Conclusions We showed that the PCP4 promoter was one of the most hypomethylated in APAs and that PCP4 transcription may be associated with demethylation as well as with CEBPA in APAs. KCNJ5 mutations known to result in aldosterone overproduction were not related to PCP4 methylation in either clinical or in vitro studies.
Impaired verbal learning in forensic inpatients with Schizophrenia Spectrum Disorder

ABSTRACT The present study aimed to: (a) examine verbal learning performances among forensic inpatients diagnosed with Schizophrenia Spectrum Disorder (SSD); and (b) compare verbal learning performances among forensic SSD inpatients, SSD outpatients, and a small control sample. Participants included forensic SSD inpatients (n = 71), SSD outpatients (n = 305; see Stone et al.), and a control sample from the California Verbal Learning Test-II (CVLT-II) manual (n = 78; see Delis, Kramer, Kaplan, & Ober). Five verbal learning outcomes were measured using the CVLT-II. The average forensic SSD inpatients performed 1 to 1.5 standard deviations below the mean across the five verbal learning outcomes, many of whom (26.8% to 36.6%) performed in the impaired range across the five outcomes. Forensic SSD inpatients performed significantly lower than the SSD outpatients on three verbal learning outcomes and significantly lower than healthy controls on all five verbal learning outcomes. Results indicated forensically committed SSD inpatients have diminished verbal learning performances. Study findings could help define normative verbal learning performances in different types of SSD patients, may guide the development of compensatory strategies for verbal learning deficits, and could subsequently lead to more successful clinical outcomes in this population.
Immersion and invariance‐based impedance control for electrohydraulic systems

This work deals with the impedance control of electrohydraulic systems based on the concept of immersion and invariance. In the first step, the impedance control task for a basic electrohydraulic system comprising a hydraulic cylinder and a 4/3 proportional valve is analyzed. In order to mitigate the problem of energetic inefficiency and the high demands on the dynamics of the valve, an extended electrohdydraulic system is proposed. By means of a suitable choice of the parameters and an immersion and invariance‐based controller strategy, a significant reduction of both energy consumption and required dynamics of the valve can be obtained. The feasibility of the proposed impedance control strategies is demonstrated by extensive simulation studies. Copyright © 2009 John Wiley & Sons, Ltd.
Longitudinal shrinkage in fast-grown loblolly pine plantation wood

Genetically improved trees or trees from selected seed stock may grow so fast in intensively managed plantations that they reach sawtimber size in 25 to 30 years or less. Trees harvested at this age contain high proportions of juvenile wood, which when used in solid form, may exhibit excessive longitudinal shrinkage; this adversely affects dimensional stability of woodbased products. This paper provides basic informaUon about loblolly pine longitudinal shrinkage (LS) characteristics, age-LS profiles, and relationships between LS and anatomical properties. Segmented regression equations were developed to describe the relationships between microfibril angle (FA) and age, LS and FA, and LS and age (.)
Egg white/poly (vinyl alcohol)/MMT nanocomposite hydrogels for wound dressing

Abstract Nanocomposite hydrogels on the basis of egg white and poly (vinyl alcohol) (PVA) containing 0, 5, and 10 wt. % of montmorillonite (MMT) nanoclay were prepared by a facile cyclic freezing–thawing technique and their properties investigated for wound dressing application. The morphological, structural, thermal, physical, and in vitro cytotoxic properties of the prepared nanocomposite hydrogel wound dressings (NHWDs) were experimentally studied. The NHWDs had an exfoliated morphology with a porous structure having pores sizes in the nanometric scale. It was shown that MMT acted as cross-linker in the network of NHWDs and improved their thermal stabilities. The prepared wound dressings were transparent and their equilibrium water contents and water vapor transmission rates, as two important factors of wound dressings, were very close to the properties of human skin which means that the prepared wound dressings could interact appropriately with the damaged tissues of wounds and protect them like an artificial skin during the wound healing process. The in vitro cytotoxicity assay also confirmed the non-cytotoxic nature of the prepared NHWDs. It was finally concluded that the prepared egg white/PVA/MMT nanocomposite hydrogels are promising materials to be used as novel wound dressings in wound and burn care.
First Look at the Venom of Naja ashei

Naja ashei is an African spitting cobra species closely related to N. mossambica and N. nigricollis. It is known that the venom of N. ashei, like that of other African spitting cobras, mainly has cytotoxic effects, however data about its specific protein composition are not yet available. Thus, an attempt was made to determine the venom proteome of N. ashei with the use of 2-D electrophoresis and MALDI ToF/ToF (Matrix-Assisted Laser Desorption/Ionization Time of Flight) mass spectrometry techniques. Our investigation revealed that the main components of analysed venom are 3FTxs (Three-Finger Toxins) and PLA2s (Phospholipases A2). Additionally the presence of cysteine-rich venom proteins, 5′-nucleotidase and metalloproteinases has also been confirmed. The most interesting fact derived from this study is that the venom of N. ashei includes proteins not described previously in other African spitting cobras—cobra venom factor and venom nerve growth factor. To our knowledge, there are currently no other reports concerning this venom composition and we believe that our results will significantly increase interest in research of this species.
Wire -- A Formal Intermediate Language for Binary Analysis

Wire is a intermediate language to enable static program analysis on low level objects such as native executables. It has practical benefit in analysing the structure and semantics of malware, or for identifying software defects in closed source software. In this paper we describe how an executable program is disassembled and translated to the Wire intermediate language. We define the formal syntax and operational semantics of Wire and discuss our justifications for its language features. We use Wire in our previous work Malwise, a malware variant detection system. We also examine applications for when a formally defined intermediate language is given. Our results include showing the semantic equivalence between obfuscated and non obfuscated code samples. These examples stem from the obfuscations commonly used by malware.
Strawberry: Fast and accurate genome-guided transcript reconstruction and quantification from RNA-Seq

We propose a novel method and computational tool, Strawberry, for transcript reconstruction and quantification from paired-end RNA-seq data under the guidance of genome alignment and independent of gene annotation. Strawberry achieves this through disentangling assembly and quantification in a sequential manner. The application of a fast flow network algorithm for assembly speeds up the construction of a parsimonious set of transcripts. The resulting reduced data representation improves the efficiency of expression-level quantification. Strawberry leverages the speed and accuracy of transcript assembly and quantification in such a way that processing 10 million simulated reads (after alignment) requires only 90 seconds using a single thread while achieving over 92% correlation with the ground truth, making it the state-of-the-art method. Strawberry outperforms Cufflinks and StringTie, the two other leading methods, in many aspects, including the number of corrected assembled transcripts and the correlation with the ground truth of simulated RNA-seq data. Availability: Strawberry is written in C++11, and is available as open source software at https://github.com/ruolin/Strawberry under the GPLv3 license.
Muscle Thickness and Passive Muscle Stiffness in Elite Athletes: Implications of the Effect of Long-Term Daily Training on Skeletal Muscle

Abstract To examine the effect of long-term daily training on athletes’ skeletal muscle, this study determined the relation between their muscle thickness and passive muscle stiffness, and compared the muscle thickness and muscle stiffness between athletes and non-athletes. Participants were elite Japanese athletes (278 men, 200 women) from various sports and non-athletes (35 men, 35 women). Rectus femoris (RF) muscle thickness was measured using B-mode ultrasonography and was normalized to the total body mass (muscle thickness/body mass1/3). RF passive muscle stiffness (shear modulus) was assessed by ultrasound shear-wave elastography. There was a negligibly significant correlation between muscle thickness and muscle stiffness in male athletes (p=0.003; r=−0.18) but not in female athletes (p=0.764; r=0.02). Among men, muscle thickness was significantly greater in athletes than non-athletes (p<0.001), whereas muscle stiffness was significantly less in athletes than non-athletes (p=0.020). Among women, muscle thickness was significantly greater in athletes than non-athletes (p<0.001), whereas muscle stiffness did not differ significantly between athletes and non-athletes (p=0.412). These results suggest that the effect of long-term daily training performed by athletes on muscle stiffness is more complicated than that on muscle thickness.
Inventory Control System for a Healthcare Apparel Service Centre with Stockout Risk: A Case Analysis

Based on the real-world inventory control problem of a capacitated healthcare apparel service centre in Hong Kong which provides tailor-made apparel-making services for the elderly and disabled people, this paper studies a partial backordered continuous review inventory control problem in which the product demand follows a Poisson process with a constant lead time. The system is controlled by an (Q,r) inventory policy which incorporate the stockout risk, storage capacity, and partial backlog. The healthcare apparel service centre, under the capacity constraint, aims to minimize the inventory cost and achieving a low stockout risk. To address this challenge, an optimization problem is constructed. A real case-based data analysis is conducted, and the result shows that the expected total cost on an order cycle is reduced substantially at around 20% with our proposed optimal inventory control policy. An extensive sensitivity analysis is conducted to generate additional insights.
Climate‐related environmental variation in a visual signalling device: the male and female dewlap in Anolis sagrei lizards

Animals communicate using a variety of signals that differ dramatically among and within species. The astonishing dewlap diversity in anoles has attracted considerable attention in this respect. Yet, the evolutionary processes behind it remain elusive and have mostly been explored for males only. Here, we considered Anolis sagrei males and females to study signal divergence among populations. First, we assessed the degree of variation in dewlap design (size, pattern and colour) and displays by comparing 17 populations distributed across the Caribbean. Second, we assessed whether the observed dewlap diversity is associated with variation in climate‐related environmental conditions. Results showed that populations differed in all dewlap characteristics, with the exception of display rate in females. We further found that males and females occurring in ‘xeric’ environments had a higher proportion of solid dewlaps with higher UV reflectance. In addition, lizards inhabiting ‘mesic’ environments had primarily marginal dewlaps showing high reflectance in red. For dewlap display, a correlation with environment was only observed in males. Our study provides evidence for a strong relationship between signal design and prevailing environmental conditions, which may result from differential selection on signal efficacy. Moreover, our study highlights the importance of including females when studying dewlaps in an evolutionary context.
An estimate of anthropogenic CO2 inventory from decadal changes in oceanic carbon content

Increased knowledge of the present global carbon cycle is important for our ability to understand and to predict the future carbon cycle and global climate. Approximately half of the anthropogenic carbon released to the atmosphere from fossil fuel burning is stored in the ocean, although distribution and regional fluxes of the ocean sink are debated. Estimates of anthropogenic carbon (Cant) in the oceans remain prone to error arising from (i) a need to estimate preindustrial reference concentrations of carbon for different oceanic regions, and (ii) differing behavior of transient ocean tracers used to infer Cant. We introduce an empirical approach to estimate Cant that circumvents both problems by using measurement of the decadal change of ocean carbon concentrations and the exponential nature of the atmospheric Cant increase. In contrast to prior approaches, the results are independent of tracer data but are shown to be qualitatively and quantitatively consistent with tracer-derived estimates. The approach reveals more Cant in the deep ocean than prior studies; with possible implications for future carbon uptake and deep ocean carbonate dissolution. Our results suggest that this approachs applied on the unprecedented global data archive provides a means of estimating the Cant for large parts of the world's ocean.