Miracle-dz/UniFAR-FTUs huggingface dataset:
Predicting protein oxidation sites with feature selection and analysis approach

Protein oxidation is a ubiquitous post-translational modification that plays important roles in various physiological and pathological processes. Owing to the fact that protein oxidation can also take place as an experimental artifact or caused by oxygen in the air during the process of sample collection and analysis, and that it is both time-consuming and expensive to determine the protein oxidation sites purely by biochemical experiments, it would be of great benefit to develop in silico methods for rapidly and effectively identifying protein oxidation sites. In this study, we developed a computational method to address this problem. Our method was based on the nearest neighbor algorithm in which, however, the maximum relevance minimum redundancy and incremental feature selection approaches were incorporated. From the initial 735 features, 16 features were selected as the optimal feature set. Of such 16 optimized features, 10 features were associated with the position-specific scoring matrix conservation scores, three with the amino acid factors, one with the propensity of conservation of residues on protein surface, one with the side chain count of carbon atom deviation from mean, and one with the solvent accessibility. It was observed that our prediction model achieved an overall success rate of 75.82%, indicating that it is quite encouraging and promising for practical applications. Also, the 16 optimal features obtained through this study may provide useful clues and insights for in-depth understanding the action mechanism of protein oxidation.
Interleaved OFDM Radar Signals for Simultaneous Polarimetric Measurements

A novel pair of mutually-orthogonal radar waveforms is proposed for simultaneous polarimetric measurements (SPM). The proposed waveform pair exploits the orthogonality features between different subcarriers within a single orthogonal frequency division multiplexing (OFDM) chip, and is called interleaved OFDM (I-OFDM). With I-OFDM signals the isolation limitation defined by the bandwidth time (BT) product for frequently used waveform pairs like linear frequency modulated (LFM) and phase-code modulated (PCM) signals, can be overcome. The performance features of I-OFDM signals are theoretically analyzed; the application of I-OFDM signals and the corresponding signal processing scheme in SPM are presented. A significant increase of the polarimetric measurements efficiency by utilization of the proposed I-OFDM signals has been verified by experiments using an operational radar system.
USE OF SLUDGE FROM KRAFT MILL WASTEWATER TREATMENT AS IMPROVER OF VOLCANIC SOILS: EFFECT ON SOIL BIOLOGICAL PARAMETERS

Sludge from kraft mill wastewater treatment was applied on two soils derived from volcanic ashes and, the effect on biological parameters of the soils was evaluated. The soils used in this study were an Andisol belonging of Gorbea Series and an Ultisol belonging of Collipulli Series. The sludge was added at rates of 0, 10, 20, 30 and 50 t ha -1 . Previously, germination of red clover (Trifolium pratense), white clover (Trifolium repens), alfalfa (Medicago sativa) and ryegrass (Lolium perenne) was tested to assess phytotoxicity of the sludge. The different soil-sludge mixtures were incubated at controlled temperature for 60 days and microbial respiration, microbial biomass carbon, fluorescein diacetate hydrolysis and acid phosphatase activity were evaluated throughout the incubation time. All biological parameters evaluated were sensitive enough to shown the effect of sewage sludge application on soil microorganisms. The sludge application at different rates increased significantly (P<0.05) the microbial activity and enzymatic activity of the sludge amended soils. The maximum levels of activity were observed between 15 and 30 days after sludge application in both Gorbea soil and Collipulli soil, obtaining the highest values when were applied between 30 and 50 t ha -1 . The results of this study suggest that sludge from kraft mill wastewater treatment may have potential as a beneficial soil amendment for improving biological properties of the soils.
Conflicts of interest There are no conflicts of interest

1. Sprung J, Bourke DL, Contreras MG, Warner ME, Findlay J. Perioperative hearing impairment. Anesthesiology 2003;98: 241‐57. 2. Lee CM, Peachman FA. Unilateral hearing loss after spinal anesthesia treated with epidural blood patch. Anesth Analg 1986;65:312. 3. Millen SJ, Toohill RJ, Lehman RH. Sudden sensorineural hearing loss: Operative complication in non‐otologic surgery. Laryngoscope 1982;92:613‐7. 4. Naessens M, Kuhweide R, Ampe W, Depondt M, D’Hont G. Hearing loss following lumbar puncture: Case report and literature study. Acta Otorhinolaryngol Belg 1994;48:351‐5. 5. Sánchez‐Conde P, Nicolás JL, Rodríguez JM, Gutiérrez R, del Cañizo A, Muriel C. Transient bilateral hearing loss after spinal anesthesia. Rev Esp Anestesiol Reanim 1996;43:229‐30. 6. Wemama JP, Delecroix M, Nyarwaya JB, Krivosic‐Horber R. Permanent unilateral vestibulocochlear dysfunction after spinal anesthesia. Anesth Analg 1996;82:406‐8. 7. Hochermann M, Reimer A. Hearing loss after general anaesthesia (a case report and review of literature). J Laryngol Otol 1987;101:1079‐82. 8. Bovo R, Ortore R, Ciorba A, Berto A, Martini A. Bilateral sudden profound hearing loss and vertigo as a unique manifestation of bilateral symmetric inferior pontine infarctions. Ann Otol Rhinol Laryngol 2007;116:407‐10. 9. Lee H, Ahn BH, Baloh RW. Sudden deafness with vertigo as a sole manifestation of anterior inferior cerebellar artery infarction. J Neurol Sci 2004;222:105‐7. 10. Lee H, Whitman GT, Lim JG, Lee SD, Park YC. Bilateral sudden deafness as a prodrome of anterior inferior cerebellar artery infarction. Arch Neurol 2001;58:1287‐9. 11. Lewandowski C. Posterior Circulation Stroke. FERNE – Foundation for education and research in neurological emergencies. Available from: http://www.uic. edu/com/ferne/pdf/posterior0501.pdf. 12. Tarnutzer AA, Berkowitz AL, Robinson KA, Hsieh YH, Newman‐Toker DE. Does my dizzy patient have a stroke? A systematic review of bedside diagnosis in acute vestibular syndrome. CMAJ 2011;183:E571‐92. 13. Jauch EC, Saver JL, Adams HP Jr, Bruno A, Connors JJ, Demaerschalk BM, et al. Guidelines for the early management of patients with acute ischemic stroke: A guideline for healthcare professionals from the American Heart Association/American Stroke Association. Stroke 2013;44:870‐947. 14. Chan L, Li AH, Lai YJ, Liu HM. Stent‐assisted recanalization in acute basilar artery occlusion. Acta Neurol Taiwan 2013; 22:95‐6.
Residential Distribution System Harmonic Compensation Using PV Interfacing Inverter

The increased non-linear loads in today's typical home are a growing concern for utility companies. This situation might be worsened by the harmonic resonance introduced by the installation of capacitor banks in the distribution network. To mitigate the harmonic distortions, passive or active filters are typically used. However, with the increasing implementation of distributed generation (DG) in residential areas, using DG systems to improve the power quality is becoming a promising idea, particularly because many DG systems, such as photovoltaic (PV), wind and fuel cells, have DG-grid interfacing converters. In this paper, the potential for using photovoltaic (PV) interfacing inverters to compensate the residential system harmonics is explored. A system model including the residential load and DG is first developed. An in-depth analysis and comparison of different compensation schemes based on the virtual harmonic damping impedance concept are then carried out. The effects of the capacitor banks in the system are also studied. The effectiveness of the harmonic compensation strategies under different conditions is verified through analysis and simulations.
Comparative evaluation of linear-rotary actuator topologies for highly dynamic applications

A Linear-Rotary Actuator (LiRA) is an electrical machine whose mover can move linearly and rotate as a direct drive (without mechanical transmissions/gearboxes). Such actuators are successfully used in various applications such as pick-and-place machines that mount components on Printed Circuit Boards (PCBs), servo actuation of gearboxes, and in robot arms and/or end effectors. In order to design a compact LiRA with high dynamics, two different LiRA topologies are compared in this paper. A fair comparison is obtained by fixing the outer dimensions of the examined LiRA topologies (diameter and length). Electrical loading of the machines is determined using a simple thermal model, and an optimization based on finite element analysis is carried out. Performance criteria, such as circumferential and axial accelerations as well as maximum axial forces of all analyzed machines are compared. Moreover, metrics like total machine mass and volume of the used permanent magnets are included in the evaluation.
Etomidate and Ketamine: Residual Motor and Adrenal Dysfunction that Persist beyond Recovery from Loss of Righting Reflex in Rats

We tested the hypothesis that etomidate and ketamine produce residual effects that modify functional mobility (measured by the balance beam test) and adrenal function (adrenocorticotropic hormone (ACTH) stimulation) immediately following recovery from loss of righting reflex in rats. Intravenous etomidate or ketamine was administered in a randomized, crossover fashion (2 or 4 mg/kg and 20 or 40 mg/kg, respectively) on eight consecutive days. Following recovery of righting reflex, animals were assessed for residual effects on functional mobility on the balance beam, motor behavior in the open field and adrenal function through ACTH stimulation. We evaluated the consequences of the effects of the anesthetic agent-induced motor behavior on functional mobility. On the balance beam, etomidate-treated rats maintained their grip longer than ketamine-treated rats, indicating greater balance abilities (mean ± SD, 21.5 ± 25.1 s vs. 3.0 ± 4.3 s respectively, p < 0.021). In the open field test, both dosages of etomidate and ketamine had opposite effects on travel behavior, showing ketamine-induced hyperlocomotion and etomidate-induced hypolocomotion. There was a significant interaction between anesthetic agent and motor behavior effects for functional mobility effects (p < 0.001). Corticosterone levels were lower after both 40 mg/kg ketamine and 4 mg/kg etomidate anesthesia compared to placebo, an effect stronger with etomidate than ketamine (p < 0.001). Following recovery from anesthesia, etomidate and ketamine have substantial side effects. Ketamine-induced hyperlocomotion with 20 and 40 mg/kg has stronger effects on functional mobility than etomidate-induced hypolocomotion with 2 and 4 mg/kg. Etomidate (4 mg/kg) has stronger adrenal suppression effects than ketamine (40 mg/kg).
Non-linear Tikhonov regularization in Banach spaces for inverse scattering from anisotropic penetrable media

We consider Tikhonov and sparsity-promoting regularization in Banach spaces for inverse scattering from penetrable anisotropic media. To this end, we equip an admissible set of material parameters with the \begin{document}$L^p$\end{document} -topology and use Meyers' gradient estimate for solutions of elliptic equations to analyze the dependence of scattered fields and their Frechet derivatives on the material parameter. This allows to show convergence of a non-linear Tikhonov regularization against a minimum-norm solution to the inverse problem, but also to set up sparsity-promoting versions of that regularization method. For both approaches, the discrepancy is defined via a \begin{document}$q$\end{document} -Schatten norm or an \begin{document}$L^q$\end{document} -norm with \begin{document}$1 . Numerical reconstruction examples indicate the reconstruction quality of the method, as well as the qualitative dependence of the reconstructions on \begin{document}$q$\end{document} .
AS PROMISING THERAPEUTIC TARGETS IN ACUTE MYELOID LEUKEMIA

Acute myeloid leukemia (AML), the most prevalent acute leukemia in adults, is an aggressive hematological malignancy arising in hematopoietic stem and progenitor cells. With the exception of a few specific AML subtypes, the mainstays of treatment have not significantly changed over the last 20 years, and are still based on standard cytotoxic chemotherapy. As a result, clinical outcome remains poor for the majority of patients, with overall long term survival in the region of 20-30%. Recent successes in characterizing the genetic landscape of AML have highlighted that, despite its heterogeneity, many cases of AML carry recurrent mutations in genes encoding epigenetic regulators. Transcriptional dysregulation and altered epigenetic function have therefore emerged as exciting areas in AML research and it is becoming increasingly clear that epigenetic dysfunction is central to leukemogenesis in AML. This has subsequently paved the way for the development of epigenetically targeted therapies. In this review, we will discuss the most recent advances in our understanding of the role of epigenetic dysregulation in AML pathobiology. We will particularly focus on those altered epigenetic programs that have been shown to be central to the development and maintenance of AML in preclinical models. We will discuss the recent development of therapeutics specifically targeting these key epigenetic programs in AML, describe their mechanism of action and present their current clinical development. Finally, we will discuss the opportunities presented by epigenetically targeted therapy in AML and will highlight future challenges ahead for the AML community, to ensure that these novel therapeutics are optimally translated into clinical practice and result in clinical improvement for AML patients.
Slightly-Doped Step-Like Electron-Blocking Layer in InGaN Light-Emitting Diodes

In this letter, the effect of slightly-doped step-like electron-blocking layer (EBL) in blue InGaN multiple-quantum well light-emitting diodes is numerically investigated. Results from the simulation analyses indicate that under a low p-doping concentration, the structure with step-like EBL has better optical performance than its counterpart with conventional AlGaN EBL because of the appropriately modified energy band diagrams, which are favorable for the injection of holes and confinement of electrons.
Calmodulin Localization and its Effects on Endocytic and Phagocytic Membrane Trafficking in Paramecium multimicronucleatum

ABSTRACT. In ciliates, calmodulin (CaM), as in other cells, has multiple functions, such as activation of regulatory enzymes and modulating calcium‐dependent cellular processes. By immunogold localization, CaM is concentrated at multiple sites in Paramecium. It is seen scattered over the cytosol, but bound to its matrix, and is concentrated at the pores of the contractile vacuole complexes and with at least three microtubular arrays. It was localized peripheral to the nine‐doublet microtubules of the ciliary axonemes. The most striking localization was on the akinetic side only of the cytopharyngeal microtubular ribbons opposite the side where the discoidal vesicles, acidosomes and the 100‐nm carrier vesicles bind and move. CaM was also present at the periphery of the postoral microtubular bundles along which the early vacuole moves and was associated with the cytoproct microtubules that guide the spent digestive vacuoles to the cytoproct. It was not found on the membranes of, or in the interior of nuclei, mitochondria, phagosomes, and trichocysts, and was only sparsely scattered over the cytosolic sides of discoidal vesicles, acidosomes, lysosomes, and digestive vacuoles. Together the associations with specific microtubular arrays and the effects of trifluoperazine and calmidazolium indicate that CaM is involved (i) in vesicle transport to the cytopharynx area for vacuole formation and subsequent vacuole acidification, (ii) in early vacuole transport along the postoral fiber, and (iii) in transporting the spent vacuole to the cytoproct. Higher CaM concentrations subjacent to the cell's pellicle and close to the decorated tubules of the contractile vacuole complex may support a role for CaM in ion traffic.
Hydroxyl radical probe of the surface of lysozyme by synchrotron radiolysis and mass spectrometry.

A new approach is reported that combines synchrotron radiolysis and mass spectrometry to probe the surface of proteins. Hydroxyl radicals produced upon the radiolysis of protein solutions with synchrotron light for several milliseconds result in the reaction of amino acid side chains. This results in the formation of stable oxidation products where the level of oxidation at the reactive residues is influenced by the accessibility of their side chains to the bulk solvent. The aromatic and sulfur-containing residues have been found to react preferentially in accord with previous peptide studies. The sites of oxidation have been determined by tandem mass spectrometry. The rate of oxidation at these reactive markers has been measured for each of the proteolytic peptides as a function of exposure time based on the relative proportion of modified and unmodified peptide ions detected by mass spectrometry. Oxidation rates have been found to correlate closely with a theoretical measure of the accessibility of residue side chains to the bulk solvent in the native protein structure. The synchrotron-based approach is able to distinguish the relative accessibility of the tryptophan residue side chains of lysozyme at positions 62 and 123 from each other and all other tryptophan residues based on their rates of oxidation.
Vertical-vibration control of elevator using estimated car acceleration feedback compensation

In this paper, a vibration suppression strategy is proposed for improving the riding comfort of an elevator, using car acceleration feedback compensation. The vertical vibration of a lift car is mainly caused by the resonance of elastic ropes between the car and the sheave, and the resonant frequency of the system is dependent upon both passenger load and lift position. To suppress the vibration of a lift car, the car velocity or acceleration is needed, but only a sheave velocity is measurable in a practical situation. The proposed method applies an extended full-order observer for the simultaneous estimation of car acceleration and the identification of mechanical parameters. Acceleration feedback compensation is used for the vibration suppression control. Experimental evaluation has been performed with a 30 kVA insulated gate bipolar transistor inverter and a medium-speed elevator system in an elevator test tower. Computer simulated and experimental results prove the feasibility of the proposed vertical-vibration controller.
Hindustani music in the twentieth century

none wanted his son to be a politician and only two wanted their sons to be administrators. The others wanted [their sons to be] independent professionals" (p. 194). The author concludes that there are two different approaches to social and administrative reform: incrementalism and ideological reform. The first is a piecemeal approach to the problem of change. Ideological reform, on the other hand, tends to be comprehensive. As to the basic question whether incrementalism is suited to a developing country like India, seeking to bring about social and administrative change, the author says: "thus far it is evident, first that an either/or proposition regarding incrementalism or ideological reform is not possible. Pure pragmatism may be as dysfunctional as peculative principles and abstract ideology. This demands a genuine and concerted search for an ideal intermediate position—a subject serious enough to demand a separate full-fledged study" (p. 297). Where does all this leave the readers? Those who hoped for an administrative model for social and administrative reform in India are likely to be disappointed. Nevertheless, this book is a significant contribution to the literature on administrative reform and social change in India, as well as to that of comparative politics and development administration generally. It is also a useful bibliographic guide for beginning students.
Depth of cure and microleakage with high-intensity and ramped resin-based composite curing lights.

BACKGROUND The authors conducted a study to determine whether high-intensity curing lights in high and ramped intensity modes affect microleakage of resin-based composite restorations and whether different types of resin-based composites meet American National Standards Institute/American Dental Association Specification no. 27 (1993): 7.7 for depth of cure when polymerized using these lights. METHODS The authors compared five high-intensity lights, three plasma arc lights and two quartz-tungsten-halogen lights in their regular and ramped intensity modes with a quartz-tungsten-halogen 40-second light. The parameters tested were microleakage one month after bonding and curing depth for different resin-based composite types. The authors measured curing depth using a scratch test. RESULTS Light curing with Optilux 501 (Kerr/Demetron, Orange, Calif.) for 10 seconds and ADT Power PAC (American Dental Technologies, Corpus Christi, Texas) for 10 seconds resulted in higher microleakage values than light curing with other lights (P < .05). The microhybrid resin-based composite was the only material that met the specification when light cured with all of the lights tested. The flowable resin-based composite did not meet the specification when light cured with all lights tested. Microhybrid resin-based composite had the greatest depth of cure, and flowable resin-based composite had the least depth of cure. CONCLUSIONS Microhybrid resin-based composite microleakage is affected by some light-curing modes. Different categories of resin-based composites are cured to different depths using high-intensity lights. CLINICAL IMPLICATIONS Light curing with some high-intensity lights compared with halogen lights may result in higher microleakage values. Use caution when light curing flowable resin-based composite with the high-intensity lights. Place increments less than 2 millimeters in depth when using this material.
Neural Optimizer Search with Reinforcement Learning

We present an approach to automate the process of discovering optimization methods, with a focus on deep learning architectures. We train a Recurrent Neural Network controller to generate a string in a domain specific language that describes a mathematical update equation based on a list of primitive functions, such as the gradient, running average of the gradient, etc. The controller is trained with Reinforcement Learning to maximize the performance of a model after a few epochs. On CIFAR-10, our method discovers several update rules that are better than many commonly used optimizers, such as Adam, RMSProp, or SGD with and without Momentum on a ConvNet model. We introduce two new optimizers, named PowerSign and AddSign, which we show transfer well and improve training on a variety of different tasks and architectures, including ImageNet classification and Google's neural machine translation system.
Bone Conduction Pickup Based on Piezoelectric Micromachined Ultrasonic Transducers

This paper reports a novel bone conduction pickup approach based on piezoelectric micromachined ultrasonic transducers (PMUTs) as the sound pickup element. The PMUT array is die-attached on an amplification circuit and encapsulated with acoustically transparent adhesive. The packaged PMUT array is attached on the throat of a human body to pick up the sound signals. Compared with the classical air conduction approach, the reported bone conduction pickup method demonstrates a signal-to-noise ratio (SNR) improvement of two times in noisy (with noise level of around 45 dB) and 5 times in very noisy (with noise level of around 65 dB) environments, respectively. This work explores a new application for PMUTs in the field of bone conduction pickups.