Miracle-dz/UniFAR-FTUs huggingface dataset:
A Standard Numbering Scheme for Class C (cid:2) -Lactamases

Unlike for classes A and B, a standardized amino acid numbering scheme has not been proposed for the class C (AmpC) (cid:2) -lactamases, which complicates commu-nication in the ﬁeld. Here, we propose a scheme developed through a collaborative ap-proach that considers both sequence and structure, preserves traditional numbering of catalytically important residues (Ser 64 , Lys 67 , Tyr 150 , and Lys 315 ), is adaptable to new vari-ants or enzymes yet to be discovered and includes a variation for genetic and epidemiological applications. acid -lactamases, characteristic
A Low-cost Tracking Solution For VR Headsets

Inaccurate and slow positional tracking are fundamental problems of low-cost VR solutions. These factors can induce motion sickness and therefore signiﬁcantly deteriorate the user experience. There are already a variety of solutions available to track the position of a VR HMD, some of which can be made robust and low-latency by inexpensive means. This thesis proposes a low-cost, outside-in, optical tracking solution. As optical sensor a stationary camera with an IR pass ﬁlter is used to capture an array of IR LEDs, which are integrated at strategic locations within the frame of the HMD. By using the OpenCV library the 3D pose of the LEDs can be estimated, and used to change the perspective of the user within the virtual world. In particular, this tracking solution incorporates a fast, cost-effective, modiﬁed camera, capable of capturing over 180 frames per second. With this camera and a custom designed polyhedral structure to incorporate the LEDs, the LED array can be calibrated quickly and tracked accurately even when oriented at an obtuse angle with the camera. The high frame rate also allows for a redundancy in pose estimations, obtained by a mix of algebraic and iterative PnP solvers to further improve numerical stability and accuracy. The tracking algorithm accurately tracks the developed prototype at short distances, even when placed in a noisy environment. The calibration procedure can also be performed fast, so that tracking can be resumed within a second when tracking has been lost due to occlusion. Recommendations for further improvements would be to integrate an IMU to provide tracking information in case that the HMD becomes occluded, and to overall improve tracking of rotational movement. Also, a higher resolution optical sensor should be used to improve the range of this tracking solution.
Non-Parametric Change Point Problems Using Multipliers

Trying to perform non-parametric change point tests for multivariate data using empirical processes is much more difficult that in the univariate case, since the limiting distribution depends on the unknown joint distribution function or its associated copula. In order to solve this problem, we extend the multiplier central limit theorem to empirical processes of pseudo-observations to build asymptotically independent copies of these processes. Examples of applications to change point problems for i.i. d observations and innovations of dynamic models are given, both for the full distribution and the associated copula.
ORF157 from the Archaeal Virus Acidianus Filamentous Virus 1 Deﬁnes a New Class of Nuclease (cid:1)

Acidianus ﬁlamentous virus 1 (AFV1) ( Lipothrixviridae ) is an enveloped ﬁlamentous virus that was characterized from a crenarchaeal host. It infects Acidianus species that thrive in the acidic hot springs (>85°C and pH <3) of Yellowstone National Park, WY. The AFV1 20.8-kb, linear, double-stranded DNA genome encodes 40 putative open reading frames whose sequences generally show little similarity to other genes in the sequence databases. Because three-dimensional structures are more conserved than sequences and hence are more effective at revealing function, we set out to determine protein structures from putative AFV1 open reading frames (ORF). The crystal structure of ORF157 reveals an (cid:1)(cid:2)(cid:3) protein with a novel fold that remotely resembles the nucleotidyltransferase g/ml antiproteases (cid:9) 80°C. thawing sonication, the lysates 60°C min clariﬁed centrifugation for 30 min 12,000 (cid:7) g The overexpressed ﬁrst puriﬁed afﬁnity chromatography A¨kta fast-performance liquid chromatograph (FPLC). The N-terminal hexahistidine tag was cleaved of the TEV protease with a mass ratio of TEV/AFV1-157 of 1/10 for 1 h at 20°C. The protein then was puriﬁed from the ﬂowthrough of nickel afﬁnity by a preparative Superdex 200 HR26/60 gel ﬁltration in 10 mM HEPES, pH 7.5, 500 mM NaCl. Puriﬁed proteins were matrix-assisted desorption ionization time-of-ﬂight mass spectrometry Autoﬂex; Bru¨ker), trypsin peptide mass ﬁn-gerprint far-UV circular dichroism molecular using analytical chromatography (SEC) chromatography (HPLC) (Waters) mul- absorbance and refractive index SEC
Harmonic analysis in phase space

This book provides the first coherent account of the area of analysis that involves the Heisenberg group, quantization, the Weyl calculus, the metaplectic representation, wave packets, and related concepts. This circle of ideas comes principally from mathematical physics, partial differential equations, and Fourier analysis, and it illuminates all these subjects. The principal features of the book are as follows: a thorough treatment of the representations of the Heisenberg group, their associated integral transforms, and the metaplectic representation; an exposition of the Weyl calculus of pseudodifferential operators, with emphasis on ideas coming from harmonic analysis and physics; a discussion of wave packet transforms and their applications; and a new development of Howe's theory of the oscillator semigroup.
EDITORIAL Leptin, Nutrition, and Reproduction: Timing Is Everything

reproduction is very sensitive to status. Undernutrition delays the onset of sexual maturation (1, 2) and in sexually mature animals estrous cycles and the postpartum estrus Undernutrition also negatively affects sexual behavior The of on the hy-pothalamic-pituitary-gonadal pituitary LH reflection of hypothalamic GnRH (gonadotropin-releasing
By parallel reasoning : the construction and evaluation of analogical arguments

Preface 1. Analogical arguments 2. Philosophical theories 3. Computational theories 4. The articulation model 5. Analogies in mathematics 6. Similarity and patterns of generalization 7. Analogy and epistemic values 8. Analogy and symmetry 9. Conclusion Bibliography Index
Comparative Life Cycle Assessment of Co-Processing of Bio-Oil and Vacuum Gas Oil in an Existing Reﬁnery

: The co-cracking of vacuum gas oil (VGO) and bio-oil has been proposed to add renewable carbon into the co-processing products. However, the environmental performance of the co-processing scheme is still unclear. In this paper, the environmental impacts of the co-processing scheme are calculated by the end-point method Eco-indicator 99 based on the data from actual industrial operations and reports. Three scenarios, namely fast pyrolysis scenario, catalytic pyrolysis scenario and pure VGO scenario, for two cases with different FCC capacities and bio-oil co-processing ratios are proposed to present a comprehensive comparison on the environmental impacts of the co-processing scheme. In Case 1, the total environmental impact for the fast pyrolysis scenario is 1.14% less than that for the catalytic pyrolysis scenario while it is only 26.1% of the total impacts of the pure VGO scenario. In Case 2, the environmental impact of the fast pyrolysis scenario is 0.07% more than that of the catalytic pyrolysis and only 64.4% of the pure VGO scenario impacts. Therefore, the environmental impacts can be dramatically reduced by adding bio-oil as the FCC co-feed oil, and the optimal bio-oil production technology is strongly affected by FCC capacity and bio-oil co-processing ratio.
Title : Untargeted metabolomics reveals sugar and homocysteine dysregulations in prodromal

Introduction: Altered metabolism may occur early in Alzheimer’s disease (AD). We used untargeted high-resolution metabolomics in the cerebrospinal fluid (CSF) in mild cognitive impairment (MCI) to identify these alterations. Methods: CSF from 92 normal controls and 93 MCI underwent untargeted metabolomics using high-resolution mass spectrometry with liquid chromatography. Partial least squares discriminant analysis was used followed by metabolite annotation and pathway enrichment analysis (PES). Significant features were correlated with disease phenotypes using spearman correlation. Results: We identified 294 features differentially expressed between the 2 groups and 94 were annotated. PES showed that pathways related to sugar regulation (N-Glycan, p =0.0007; sialic acid, p =0.0014; Aminosugars, p =0.0042; galactose, p =0.0054) homocysteine regulation ( p =0.0081) were differentially activated and significant features within these pathways correlated with disease phenotypes. Conclusion: We identified a metabolic signature characterized by impairments in sugar and homocysteine regulation in prodromal AD. Targeting these changes may offer new therapeutic approaches to AD profiling. In this study, we conducted a case-control untargeted high resolution metabolomic study on the CSF of a relatively larger sample of normal cognition (NC) and mild cognitive impairment (MCI), a prodromal state for AD. We aimed at investigating the alterations between NC and MCI in the metabolome and metabolic pathways using an established high resolution metabolomic biospecimen and data analysis pipeline. We further explored the association of these metabolic alterations with multiple disease phenotypes related to cognition, CSF Amyloid beta 1-42 (A β 42) and tau biomarkers, and brain MRI measures.
Neuropsychiatric symptoms associated with the COVID-19 and its potential nervous system infection mechanism: the role of imaging in the study

The epidemic of coronavirus disease 2019 (COVID-19) has broken the normal spread mode of respiratory viruses, namely, mainly spread in winter, resulting in over 230 million confirmed cases of COVID-19. Many studies have shown that severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) can affect the nervous system by varying degrees. In this review, we look at the acute neuropsychiatric impacts of COVID-19 patients, including acute ischemic stroke, encephalitis, acute necrotizing encephalopathy, dysosmia, and epilepsy, as well as the long-term neuropsychiatric sequelae of COVID-19 survivors: mental disorder and neurodegenerative diseases. In particular, this review discusses long-term changes in brain structure and function associated with COVID-19 infection. We believe that the traditional imaging sequences are important in the acute phase, while the nontraditional imaging sequences are more meaningful for the detection of long-term neuropsychiatric sequelae. These long-term follow-up changes in structure and function may also help us understand the causes of neuropsychiatric symptoms in COVID-19 survivors. Finally, we review previous studies and discuss some potential mechanisms of SARS-CoV-2 infection in the nervous system. Continuous focus on neuropsychiatric sequelae and a comprehensive understanding of the long-term impacts of the virus to the nervous system is significant for formulating effective sequelae prevention and management strategies, and may provide important clues for nervous system damage in future public health crises.
Study of Different Agile Methodologies and Designing of General Agile Methodologies (GAM) Framework

- For the people related to software development industry, it was a continuous challenge to select the appropriate software development methodology. Since the early 1990s, the general trend in software development technology was to change from the plan-driven approach to more iterative incremental development approaches. This change has led to the birth of a group of methodologies called “agile methodologies”. The values and principles are becoming more prevalent in the software development industry. At the later stage, since 2004, the focus of selecting specific agile methodology shifted to selection of the most appropriate practices from the agile family. This paper, contribute towards greater understanding of software development issues and would be useful to developers who want to adopt agile methodologies as generic development culture without thinking about the specific agile methodology.
A Lenet-5 Based Bangla Handwritten Digit Recognition Framework

Hand composed Digit recognition in Bangla language is a valuable beginning stage for creating an Optical Character Recognition in the Bengali language. Be that as it may, Absence of huge and honest data collection, recognition of Bangla digit was not build already. In any case, in this outline, a colossal & honest data source known as NumtaDB is utilized for recognition of Bengali digits. The troublesome endeavour is connected to getting the solid presentation and high precision for gigantic, fair, common, natural and particularly extended NumtaDB dataset. So various sorts of pre-processing frameworks are utilized for planning pictures and a significant convolutional neural network is utilized for the request of representation in this paper. The LeNet-5 architecture based convolutional neural network model has indicated superb execution. We have accomplished 97.5% testing exactness which is a decent outcome for huge and fair NumtaDB dataset contrasting with other one-sided datasets. A wide range of pre-processing of pictures is additionally significant before preparing. We utilize some pre-processing strategies for obscure and loud pictures yet these are insufficient for the elite. An examination of the system brings out the EMNIST and MNIST datasets was performed so as to sustain the appraisal.
Accessibility and Network Changes of the Planned Budapest-Belgrade High-speed Railway

The development of the Budapest-Belgrade high-speed railway has been announced officially in autumn 2016. The railway link has a total length of 350 km, designed for a maximum speed of 200 km per hour. Enhancement of the railway connection is an important condition for achieving better mobility as well as promoting economic development of the regions concerned. There will be obvious changes in the Trans-European network connections and accessibility improvements will be achieved. In the current research the changes of a complex multimodal transport network indicator is assessed. The results indicate the positive changes in the competitive potential of the regions concerned as well as their role in the European co-operation. The other part of the research uses an enhanced accessibility function to characterize and compare multimodal regional and international connections, calculating the changes of the accessibility between some Central-European capitals proving competitiveness of high speed rail compared to other modes.
Inhibitory e¡ects of 7-epiclusianone on glucan synthesis, acidogenicity and bio¢lm formation by Streptococcusmutans

The aim of this study was to examine the effects of 7-epiclusianone, a new prenylated benzophenone isolated from the plant Rheedia gardneriana , on some of the virulence properties of Streptococcus mutans associated with bioﬁlm development and acidogenicity. The synthesis of glucans by glucosyltransferases B (GTF B) and C (GTF C) was markedly reduced by 7-epiclusianone showing more than 80% inhibition of enzymatic activity at a concentration of 100 m g mL (cid:1) 1 . Double-reciprocal analysis (Lineweaver–Burk plots) revealed that the inhibition of GTF B activity was noncompetitive (mixed) while GTF C was inhibited uncompetitively. The glycolytic pH drop by S. mutans cells was also disrupted by 7-epiclusianone without affecting the bacterial viability, an effect that can be attributed, in part, to inhibition of F-ATPase activity (61.1 (cid:2) 3.0% inhibition at 100 m g mL (cid:1) 1 ). Further-more, topical applications (1-min exposure, twice daily) of 7-epiclusianone (at 250 m g mL (cid:1) 1 ) disrupted bioﬁlm formation and physiology. The biomass (dry-weight), extracellular insoluble polysaccharide concentration and acidogenicity of the bioﬁlms were signiﬁcantly reduced by the test agent ( P o 0.05). The data show that 7-epiclusianone disrupts the extracellular and intracellular sugar metabolism of S. mutans , and holds promise as a novel, naturally occurring compound to prevent bioﬁlm-related oral diseases.
A Survey on Data Discovery and Dissemination Protocols for Wireless Sensor Networks

--A wireless sensor network (WSN) is a collection of large number of self-organizing nodes scattered in adhoc fashion. They are mainly used for monitoring and control of environment parameters. They are set up in remote regions to shape a remote correspondence system and it accumulates data tests for fundamental spaces, for instance, military, industry, environment et cetera. It is important to spread data and code through wireless links once the nodes are deployed to adjust parameters of sensors, update the sensor programs and to distribute management queries to sensors. This is known as data dissemination or reprogramming in WSNs. These data dissemination protocols are important for sensor networks because almost all WSNs are deployed in hostile environments and thus manual reprogramming of such nodes is not possible. Since today many data dissemination protocols have been developed and each one of these protocols helps in the dissemination of coding program, configuration parameters, queries, large data etc.
FULL PAPER, TOXICOLOGY Effects of zinc on tissue uptake and toxicity of lead in Sprague Dawley rat Running head: ZINC MITIGATIVE EFFECT ON LEAD TOXICITY

Lead (Pb) exposure occurs together with other metals including zinc (Zn). This study investigated the impact of Zn on Pb tissue accumulation and Pb-induced toxicities. Animals (n = 6 rats per group) were exposed to lead acetate (PbAc) or a combination of PbAc and zinc acetate (ZnAc) under the following groups: control (deionized water), low PbAc [12 mg/kg PbAc (3 mg PbAc/rat/day)], low PbAc–ZnAc [12 mg/kg PbAc (3 mg PbAc/rat/day) + 0.2 mg ZnAc/rat/48 hr], high PbAc [120 mg/kg (30 mg PbAc/rat/day)], and high PbAc–ZnAc [120 mg/kg (30 mg PbAc/rat/day) + 1 mg ZnAc/rat/48 hr] for 8 weeks. A significant reduction in body weight gain was observed in the high PbAc group relative to the control group. Muscles and testes both had reduced and increased Pb uptake in low PbAc–ZnAc and high PbAc–ZnAc groups compared to PbAc only groups, respectively. Bone Pb levels in the high PbAc–ZnAc group were lower than the high PbAc group. Zinc co-administration attenuated Pb-induced inhibition of delta aminolaevulinic acid dehydratase enzyme and enhanced catalase enzyme activity at a high level of exposure. Moreover, ZnAc seems to have minimized the effects of Pb-induced mRNA dysregulation in antioxidant and antiapoptotic enzymes encoding genes. Heme oxygenase-1 was downregulated in the kidney and brain in the low PbAc group. Liver glutathione peroxidase and thioredoxin reductase-1 were downregulated in the high PbAc group. These findings suggest that zinc co-administration with lead may partially mitigate against Pb-induced toxicities.
Neuropilin-1 modulates poly(ADP-ribose)-polymerase expression leading to reduced endothelial apoptosis in cerebral ischemia

Vascular Endothelial Growth Factor(VEGF) inhibits endothelial apoptosis through upregulation of Poly(ADP-ribose)-Polymerase(PARP) expression. Neuropilin-1(NP-1) is an alternative receptor for VEGF and possibly a fine-regulator of the endothelial response to ischemia. In the cerebral vasculature the mechanisms of apoptosis induction and inhibition are not fully understood. This study investigated the impact of NP-1 on endothelial PARP expression and its modulatory role in apoptosis inhibition by VEGF. VEGF treated endothelial cell cultures showed NP-1 and VEGF-R2 complexing and enhanced PARP expression. An inhibition of VEGF/VEGFR-2 interaction on apoptosis induced by adhesion inhibition through the  V-integrin inhibitor cRGD was augmented. Cerebral ischemia and endothelial apoptosis were investigated by MRI and immunohistochemistry in rat models of permanent and temporary middle cerebral artery occlusion. Ischemic hemispheres displayed apoptosis and increased endothelial NP-1 and VEGFR-2 expression compared to non-ischemic hemispheres and sham-operated or untreated controls. Increased SOD-1 and Catalase expression indicated oxidative stress in the ischemic brain. Endothelial PARP expression remained stable during cerebral ischemia despite pro-apoptotic conditions. Abstract Cerebral ischemia is encompassed by vascular apoptosis leading to cerebrovascular damage, yet the mechanisms of apoptosis induction and inhibition in the cerebral vasculature are not fully understood. We have previously demonstrated inhibition of endothelial apoptosis by vascular endothelial growth factor through upregulation of poly(ADP-ribose)-polymerase expression. Here, we hypothesized that neuropilin-1, an alternative receptor for vascular endothelial growth factor, is a fine-regulator of the endothelial response to cerebral ischemia. This study investigated the impact of neuropilin-1 on endothelial poly(ADP-ribose)-polymerase expression and in turn, its modulatory role in apoptosis inhibition by vascular endothelial growth factor in the cerebrovascular system. In cultures, neuropilin-1 acted as a co-receptor growth This enhanced poly(ADP-ribose)-polymerase and protein expression induced by growth Neuropilin-1 modulates p53/caspases axis to promote endothelial cell survival.
Mechanisms and consequences of agonist-induced talin recruitment to platelet integrin (cid:2) IIb (cid:3) 3

Chinese hamster ovary (CHO) cells to conditionally express talin and protease-activated receptor (PAR) thrombin receptors. Human PAR1 or murine PAR4 stimulation activates (cid:2) IIb (cid:3) 3, which was measured with antibody PAC-1, indicating complete pathway reconstitution. Knockdown of Rap1 – guanosine triphosphate – interacting adaptor molecule (RIAM), a Rap1 effector, blocks this response. In living cells, RIAM overexpression stimulates and RIAM knockdown blocks talin recruitment to (cid:2) IIb (cid:3) 3, which is monitored by bimolecular ﬂ uorescence complementation. Mutations in talin or (cid:3) 3 that disrupt their mutual interaction block both talin recruitment and (cid:2) IIb (cid:3) 3 activation. However, one talin mutant (L325R) is recruited to (cid:2) IIb (cid:3) 3 but cannot activate it. In platelets, RIAM localizes to ﬁ lopodia and lamellipodia, and, in megakaryocytes, RIAM knockdown blocks PAR4-mediated (cid:2) IIb (cid:3) 3 activation. The RIAM-related protein lamellipodin promotes talin recruitment and (cid:2) IIb (cid:3) 3 activity in CHO cells but is not expressed in megakaryocytes or platelets. Thus, talin recruitment to (cid:2) IIb (cid:3) 3 by RIAM mediates agonist-induced (cid:2) IIb (cid:3) 3 activation, with implications for hemostasis and thrombosis. stably recombinant integrin obtained FACS sorting transfection of stable (cid:2) IIb-VC (cid:3) (repressor plasmid) and
Vibration analysis of a thin moving web and its finite element implementation

Equations of motion (lateral and axial) of an axially moving web are developed based on the Newton's Second Law and the Euler-Bernoul 1 i thin beam theoryThe equations of motion in the axial direction are solved by using the fourth-order Runge-Kutta Method. The fourth-order, partial differential equation for the lateral motion is solved using Galerkin's finite element method and the Three-point Recurrence Scheme. Effects of the flexibility of the end-supports, the weight of the web, the axial web speeds, the eccentricities of the rollers, and the applied torque to the web-roller system are