Miracle-dz/UniFAR-FTUs huggingface dataset:
Optimization of culture medium for anaerobic production of rhamnolipid by recombinant Pseudomonas stutzeri Rhl for microbial enhanced oil recovery

Response surface methodology was employed to enhance the anaerobic production of rhamnolipid by recombinant Pseudomonas stutzeri Rhl. Glycerol is a promising carbon source used to anaerobically produce rhamnolipid. In a Plackett–Burman design, glycerol, KH2PO4 and yeast extract were significant factors. The proposed optimized medium contained the following: 46·55 g l−1 glycerol; 3 g l−1 NaNO3; 5·25 g l−1 K2HPO4·3H2O; 5·71 g l−1 KH2PO4; 0·40 g l−1 MgSO4·7H2O; 0·13 g l−1 CaCl2; 1·0 g l−1 KCl; 1·0 g l−1 NaCl; and 2·69 g l−1 yeast extract. Using this optimized medium, we obtained an anaerobic yield of rhamnolipid of 3·12 ± 0·11 g l−1 with a 0·85‐fold increase. Core flooding test results also revealed that Ps. stutzeri Rhl grown in an optimized medium enhanced the oil recovery efficiency by 15·7%, which was 6·6% higher than in the initial medium. Results suggested that the optimized medium is a promising nutrient source that could effectively mobilize oil by enhancing the in situ production of rhamnolipid.
A Simple Time Domain-Based Method for Estimating the Resonance Frequency of a Bearing

Advanced condition monitoring relies on isolating fault-related components in vibration data to perform diagnostics. Depending on the fault, impulse-excited resonances may occur within the bearing, often only consisting of a single prominent frequency component. Therefore, it is desired to find these frequencies. This paper proposes a simple, yet effective time domain-based method of estimating the resonance frequency of a bearing. Approximate locations of zero crossings in impulsive signal regions are found and their period mode is estimated using kernel density estimation. It performs as expected on two experimental vibration data sets collected from running machines where there are fault-excited impulse responses from bearings present. The method is also expected to work on non-running machines with manually excited impulses, e.g. through bump tests.
Human neutrophil lipocalin is a unique marker of neutrophil inflammation in ulcerative colitis and proctitis

Background and aim: Accumulation and infiltration by neutrophil granulocytes is a prominent feature in the local inflammatory process in ulcerative colitis (UC). The present study was performed to evaluate human neutrophil lipocalin (HNL) as a specific neutrophil marker in the inflamed lesions of the colon and rectum in patients with colitis and proctitis. Methods: The activity of intestinal neutrophils with respect to release of granule proteins was studied in 18 patients with UC (10 with colitis and eight with isolated proctitis) and in 18 healthy controls using perfusion fluid and biopsies from the sigmoid colon and rectum. The released amounts of the neutrophil granule proteins HNL and myeloperoxidase (MPO) were determined by radioimmunoassays, and the location of HNL and MPO in biopsies from colonic mucosa was examined by immunohistochemistry. Results: Mucosal release of HNL and MPO was increased 10–55-fold in patients with colitis and proctitis compared with controls. Their bowel biopsies demonstrated that only neutrophils were stained with anti-HNL. We also found correlations between HNL and levels of granulocyte/macrophage-colony stimulating factor (GM-CSF) and interleukin 8 (IL-8) in perfusion fluids from the sigmoidal segments of patients with proctitis, between HNL and GM-CSF in rectal segments in patients with proctitis, and in sigmoidal segments in patients with colitis. Conclusion: We conclude that the increased release of HNL and MPO in colorectal perfusion fluids indicates neutrophil involvement in the local inflammatory process, and suggest that HNL may serve as a specific marker of intestinal neutrophil activation in UC. GM-CSF, and to some extent IL-8, may play a role in neutrophil accumulation and priming in this disease.
‘Sheltered disruption’ of Neurospora crassa MOM22, an essential component of the mitochondrial protein import complex.

MOM22 is a component of the protein import complex of the mitochondrial outer membrane of Neurospora crassa. Using the newly developed procedure of ‘sheltered disruption’, we created a heterokaryotic strain harboring two nuclei, one with a null allele of the mom‐22 gene and the other with a wild‐type allele. Homokaryons bearing the mom‐22 disruption could not be isolated, suggesting that mom‐22 is an essential gene. The mutant nucleus can be forced to predominate in the heterokaryon through the use of specific nutritional and inhibitor resistance markers. Cultivation of the heterokaryon under conditions favoring the mutant nucleus resulted in selective depletion of MOM22. MOM22‐depleted cells did not grow and contained mitochondria with an altered morphology and protein composition. Protein import into isolated, MOM22‐depleted mitochondria was abolished for most precursor proteins destined for all subcompartments. In contrast, precursors of MOM19, MOM22 and MOM72 became inserted normally into the outer membrane, defining a novel MOM22‐independent import pathway which remained intact in mutant mitochondria. Furthermore, the specific binding of the ADP/ATP carrier to the outer membrane was unaffected, but subsequent transport across the outer membrane did not occur. Our data show that MOM22 is an essential component of Neurospora cells specifically required for the biogenesis of mitochondria.
Shortest and secure routing protocol for multi-hop cellular networks (SSRP-MCN)

Nowadays, many advanced are developed and become available for users. So, the demand for a higher data rate wireless access significantly increases. For that reason, new cellular wireless networks have been introduced such as Worldwide Interoperability for Microwave Access (WiMAX), Long Term Evolution (LTE) and LTE-advanced. However, the centralized topology of these technologies requires that the users have a direct connection to the Base Station (BS). Such topology suffers from congestion problem when a large number of users are communicating in the same time. To overcome the congestion problem, the Device-to-device and the mobile relays communications have been proposed to overcome the limitations of the conventional cellular architecture. These technologies can improve the cellular network capacity and reduce the infrastructure costs. However, security in multi-hop cellular networks (MCNs) is a great challenge especially when other mobile nodes participate in the routing process. Existing works on this topic focus on ensuring security for routing information. However, most studies do not secure the data transmission after the route selection and do not simultaneously ensure all the security requirements. In this paper, we propose a new secure and reliable routing protocol for MCNs. The main objective of this protocol is to select only the trustworthy intermediate nodes to participate in the route construction. These trustworthy nodes perform the route discovery process in a secure way and so discover a secure path that does not contain any attacker as an intermediate node. The intermediate nodes of the selected route participate in establishing a group key. This key is used to secure the data transmission phase after route selection. To achieve anonymity, the BS assigns to each mobile that participates in the selected route a temporary identity. We evaluate our proposed protocol in terms of security using AVISPA tool, and we conduct some simulations using Network Simulator (NS-2). The simulation results show that it is reliable and provides acceptable performance in terms of throughput, end-to-end delay and normalized routing load. Copyright © 2016 John Wiley & Sons, Ltd.
Molecular recognition between ketosynthase and acyl carrier protein domains of the 6-deoxyerythronolide B synthase

Every polyketide synthase module has an acyl carrier protein (ACP) and a ketosynthase (KS) domain that collaborate to catalyze chain elongation. The same ACP then engages the KS domain of the next module to facilitate chain transfer. Understanding the mechanism for this orderly progress of the growing polyketide chain represents a fundamental challenge in assembly line enzymology. Using both experimental and computational approaches, the molecular basis for KS–ACP interactions in the 6-deoxyerythronolide B synthase has been decoded. Surprisingly, KS–ACP recognition is controlled at different interfaces during chain elongation versus chain transfer. In fact, chain elongation is controlled at a docking site remote from the catalytic center. Not only do our findings reveal a new principle in the modular control of polyketide antibiotic biosynthesis, they also provide a rationale for the mandatory homodimeric structure of polyketide synthases, in contrast to the monomeric nonribosomal peptide synthetases.
Design of LCL Filters With LCL Resonance Frequencies Beyond the Nyquist Frequency for Grid-Connected Converters

This paper proposes a novel LCL filter design method and its current control for grid-connected converters. With the proposed design method, it is possible to set the resonance frequency of the LCL filter to be higher than the Nyquist frequency, i.e., half of the system sampling frequency, and this observation is so far not discussed in the literature. In this case, a very cost-effective LCL filter design can be achieved for the grid-connected converters, whose dominant switching harmonics may appear at double the switching frequency, e.g., in unipolar-modulated three-level full-bridge converters and 12-switch-based three-phase pulsewidth-modulated converters. Moreover, a single-loop current control strategy is proposed for the designed LCL filter, and the control system is inherently stable without introducing any passive or active damping. Based on the new stability region, two LCL filter design examples are given, with one of them optimizing the utilization of passive filter inductors, and another one being robust against grid impedance variation. Comprehensive experimental results, showing the high-quality output current and excellent resonance attenuation, are presented in this paper, which are also in very good agreement with those of the simulated ones. These results successfully verify the feasibility of the proposed LCL filter design and its current control.
Behavioral and Neurochemical Effects of Wild-Type and Mutated Human α-Synuclein in Transgenic Mice

Abstract Human α-synuclein (hα-SYN) is implicated in the Parkinson's disease phenotype (PDP) based on a variety of studies in man, animal models, and in vitro studies. The normal function of hα-SYN and the mechanism by which it contributes to the PDP remains unclear. We created transgenic mice expressing either wild-type (hwα-SYN) or a doubly mutated (hm2α-SYN) form of hα-SYN under control of the 9-kb rat tyrosine hydroxylase promoter. These mice expressed hα-SYN in cell bodies, axons, and terminals of the nigrostriatal system. The expression of hα-SYN in nigrostriatal terminals produced effects in both constructs resulting in increased density of the dopamine transporter and enhanced toxicity to the neurotoxin MPTP. Expression of hm2α-SYN reduced locomotor responses to repeated doses of amphetamine and blocked the development of sensitization. Adult hwα-SYN-5 transgenic mice had unremarkable dopaminergic axons and terminals, normal age-related measures on two motor coordination screens, and normal age-related measures of dopamine (DA) and its metabolites. Adult hm2α-SYN-39 transgenic mice had abnormal axons and terminals, age-related impairments in motor coordination, and age-related reductions in DA and its metabolites. Expression of hm2α-SYN adversely affects the integrity of dopaminergic terminals and leads to age-related declines in motor coordination and dopaminergic markers.
Subtelomeric Copy Number Variations: The Importance of 4p/4q Deletions in Patients with Congenital Anomalies and Developmental Disability

The most prevalent structural variations in the human genome are copy number variations (CNVs), which appear predominantly in the subtelomeric regions. Variable sizes of 4p/4q CNVs have been associated with several different psychiatric findings and developmental disability (DD). We analyzed 105 patients with congenital anomalies (CA) and developmental and/or intellectual disabilities (DD/ID) using MLPA subtelomeric specific kits (P036 /P070) and 4 of them using microarrays. We found abnormal subtelomeric CNVs in 15 patients (14.3%), including 8 patients with subtelomeric deletions at 4p/4q (53.3%). Additional genomic changes were observed at 1p36, 2q37.3, 5p15.3, 5q35.3, 8p23.3, 13q11, 14q32.3, 15q11.2, and Xq28/Yq12. This indicates the prevalence of independent deletions at 4p/4q, involving PIGG, TRIML2, and FRG1. Furthermore, we identified 15 genes with changes in copy number that contribute to neurological development and/or function, among them CRMP1, SORCS2, SLC25A4, and HELT. Our results highlight the association of genes with changes in copy number at 4p and 4q subtelomeric regions and the DD phenotype. Cytogenomic characterization of additional cases with distal deletions should help clarifying the role of subtelomeric CNVs in neurological diseases.
Dynamically Configurable Physical Unclonable Function based on RRAM Crossbar

Physical unclonable function (PUF) has been an effective solution for hardware security with the popularity of the internet of things (IoT). Due to low power consumption and high area efficiency, an emerging nonvolatile memory, resistive random access memory (RRAM) based PUF designs have attracted many attentions. Due to the bottleneck in the existing RRAM PUFs that it can not be fully compatible with the memory architecture, a dynamically configurable PUF based on the mainstream RRAM crossbar is proposed in this paper. Utilizing the device-to-device variation of the RRAM resistance, abundant challenge-response pairs (CRPs) are generated with a flexible configuration of an RRAM crossbar. Furthermore, different from the existing RRAM-based PUF designs, the proposed RRAM PUF can be dynamically configured between a memory cell and a PUF cell, without requiring additional sense circuits, leading to a minimal design overhead. The simulation results show that the proposed PUF exhibits good performance with a high uniqueness and reliability. Moreover, it achieves a great resistance against machine learning (ML) attack.
Joint feature points correspondences and color similarity for robust object tracking

A new visual object tracking algorithm is proposed by using joint feature points correspondences and color similarity of the moving object to solve the background disturbance. This tracking algorithm is based on particle filtering in which a new method of computing each sample weight is proposed. Each sample weight can be obtained through measuring the similarities of color histogram and feature points between the object model and each sample. Comparisons with the conventional particle filtering and a combination between the mean shift tracking and kalman filtering, the experimental results show that this approach is robust to the moving objects tracking.
In Vivo Kinetics of the Uremic Toxin P‐Cresyl Sulfate in Mice With Variable Renal Function

Uremic toxins such as p‐cresyl sulfate (PCS) are associated with increased mortality for chronic kidney disease (CKD) patients, but in vivo PCS toxicity studies are limited due to the lack of a standard animal model. To establish such a model, we measured the pharmacokinetics of PCS in mice with variable renal function. Male Balb/c mice subjected to 5/6 nephrectomy (CRF), unilateral nephrectomy (UNX), or no surgery (controls) were given PCS (po, 50 mg/kg). Blood samples were collected over time and plasma PCS concentrations were measured. Over 4 h, PCS was significantly higher in the plasma of CRF mice (63.28 ± 2.76 mg/L), compared to UNX mice (3.11 ± 0.64 mg/L) and controls (0.39 ± 0.12 mg/L). The PCS half‐life was greatest in CRF mice (12.07 ± 0.12 h), compared to 0.79 ± 0.04 h in UNX mice and 0.48 ± 0.02 h in control mice. However, the potential presence of additional uremic toxins along with PCS in CRF mice and rapid PCS clearance in control mice suggest that the UNX mouse would be a better PCS model to study toxicity.
A novel resolution enhancement established on an iterative regularized ML MSRR and high-frequency pre-determining SSRR for ultra-magnification rate

In almost all circumstances, a digital image with high spatial resolution (so called HR) is often pleasing however it is challenging to obtain due to overpriced cost on equipment devices. Consequently, Super Resolution Reconstruction (SRR) algorithm, which espouses algebraic formulation to obtain HR with reasonable cost, has been one of the most compelling research fields in Computer Vision (CV) and digital image processing (DIP). For enlarging up to 16× spatial resolution, this paper proposes a novel resolution enhancement established on cooperation of MSRR (Multi-frame Super Resolution Reconstruction) method and SSRR (Single-frame Super Resolution Reconstruction) method. First, to maintain the edges while get rid of the noise, a set of perverted images with low spatial resolution (so called LR) are used to reconstruct the better quality image with 4× spatial resolution magnification rate by using the MSRR method established on an iterative Tukey's Biweight regularized ML (Maximum Likelihood) technique. Later, this 4× image is used to reconstruct the 16× spatial resolution image by using SSRR method established the high-spectrum pre-determining. The verification results of numerical measurement (in PSNR) and visual measurement illustrate that the proposed resolution enhancement is successful for enlarging up to 16× spatial resolution and getting rid of the noise.
Sentimental analysis of social media using R language and Hadoop: Rhadoop

The growth of Technology of World Wide Web has changed the way of expressing people's views, opinions and Sentiments about others. Mostly they use blogs, Social sites, online discussions etc. This leads to the generation of massive amount of data. Gleaning information from massive storage of data is a big challenge for the companies in these days. This paper leverages the sentimental analysis of Twitter data using R language which is helpful for collecting the sentiments information in the form of either positive score, negative score or somewhere in between them. Then we perform the analysis of tweets data that are having a size of TBs means big data using R language and Rhadoop Connector. Here the problem is related with “performance”? When we extract the information from petabytes of data we focus on the analysis of big data. This paper shows the performance estimation on two different platforms R language and Rhadoop tool.
The Antenna Dome Real-Time Distributed Antenna Pattern Characterization System

In this contribution we present the hardware components, system architecture and software modules constituting the base of the TU Delft high speed Antenna Dome. The modular architecture together with the custom designed detecting unit cell allows for real-time 2D antenna characterization, providing user defined performance, optimized for the 5G FR2 mm-wave band. The various high frequency components (i.e., antenna, square-law detector) and logical subsystem composing the dual-polarization signal acquisition unit are described and evaluated for their performance. The routines and algorithm allowing for accurate 2D spatial interpolation and the system calibration/normalization are reviewed. Finally, preliminary measurement data of antennas operating in the FR2 band are presented.
Case-fatality ratio and effectiveness of ribavirin therapy among hospitalized patients in china who had severe fever with thrombocytopenia syndrome.

BACKGROUND The wide distribution and high case-fatality ratio of severe fever with thrombocytopenia syndrome (SFTS) have made it a significant public health problem. This study was designed to identify the predictors of fatal outcomes and to evaluate the effectiveness of antiviral therapy in treating SFTS virus (SFTSV)-infected patients. METHODS A cross-sectional study was performed in a general hospital located in Xinyang city, whereas the largest number of patients with SFTS in China were treated during 2011-2012. The primary outcome for the treatment effect analysis was death. Other outcomes included sequential platelet levels and viral loads observed throughout the hospitalization and the interval between the initiation of ribavirin therapy and the return of the platelet count to a normal level. RESULTS A total of 311 SFTSV-infected patients were included in the study. The most frequent clinical presentations were fever, weakness, myalgia, and gastrointestinal symptoms. Each patient had thrombocytopenia, leukopenia, or both. The case-fatality ratio (CFR) was 17.4% (95% confidence interval [CI], 13.1%-21.6%). Older age (odds ratio [OR], 1.061; 95% CI, 1.023-1.099; P = .001), decreased level of consciousness (OR, 5.397; 95% CI, 2.660-10.948; P < .001), and elevated levels of lactate dehydrogenase (>1200 U/L; OR, 2.620; 95% CI, 1.073-6.399; P = .035) and creatine kinase (>800 U/L; OR, 2.328; 95% CI, 1.129-4.800; P = .022) were significantly associated with fatal outcome. The CFRs were similar between patients who received ribavirin and those who did not. Ribavirin treatment showed no significant effect on either platelet counts or viral loads during hospitalization of patients with fatal or nonfatal cases. CONCLUSIONS These findings can improve knowledge about the characteristics of patients with fatal outcomes and the use of antiviral drug for SFTS.
Characteristics of lipid-based formulations that influence their biological behavior in the plasma of patients.

Patients with cancer and infectious diseases often have changes in the composition and concentration of their different blood components. These changes include variations in the composition and concentration of plasma lipoprotein lipids, in transfer rates of endogenous lipid between different lipoprotein classes, and in concentrations of phagocytic cells (i.e., monocytes and macrophages). It appears that the interaction of many lipid-based drug formulations with plasma lipoproteins and blood phagocytic cells may be responsible for the unpredictable pharmacokinetics and pharmacodynamics of those compounds when administered to patients with diseases. This review examines the potential mechanisms that may explain the biological behavior of lipid-based drug formulations used in the treatment of infectious diseases and cancer.