Miracle-dz/UniFAR-FTUs huggingface dataset:
WVDL: Weighted Voting Deep Learning Model for Predicting RNA-Protein Binding Sites

RNA-binding proteins are important for the process of cell life activities. High-throughput technique experimental method to discover RNA-protein binding sites is time-consuming and expensive. Deep learning is an effective theory for predicting RNA-protein binding sites. Using weighted voting method to integrate multiple basic classifier models can improve model performance. Thus, in our study, we propose a weighted voting deep learning model (WVDL), which uses weighted voting method to combine convolutional neural network (CNN), long short term memory network (LSTM) and residual network (ResNet). First, the final forecast result of WVDL outperforms the basic classifier models and other ensemble strategies. Second, WVDL can extract more effective features by using weighted voting to find the best weighted combination. And, the CNN model also can draw the predicted motif pictures. Third, WVDL gets a competitive experiment result on public RBP-24 datasets comparing with other state-of-the-art methods. The source code of our proposed WVDL can be found in https://github.com/biomg/WVDL.
Supramolecular sulfur-containing polymers with hydrogen bonding

Although sulfur-containing polymers have been realized by various methods such as copolymerization and reverse vulcanization, there are few reports on the synthesis of supramolecular sulfur-containing polymers in which a supramolecular polymer is fused with a sulfur-containing polymer. Herein, we prepare a supramolecular sulfur-containig polymer by introducing a 2-ureido-4[1H]pyrimidinone (UPy) unit at both ends of linear sulfur and connecting between the UPys via hydrogen bonding. GRAPHICAL ABSTRACT
Community Science‐Informed Local Policy: A Case Study in Pinole Creek Litter Assessment

In the fall of 2019, over coffee at a local shop, three stakeholders, Lisa Anich (Watershed Manager, Contra Costa Resource Conservation District [CCRCD]), Norma Martinez-Rubin (Community member and Pinole Council member), and Ann Moriarty (Board member, Friends of Pinole Creek Watershed), met to discuss how they might work together and address an ongoing set of problems: trash in Pinole Creek and unconsolidated local action. The aforementioned members plus Itzel Gomez (Earth Team) are referred to as "The Core Community Team" throughout (Figure 1). When "The Community" is mentioned, it refers to The Core Community Team and their networks and partners in Pinole. The Core Community Team, composed of environmentally conscious and civically oriented volunteers, saw the value of using a standardized methodology to survey trash in the creek that would be defensible to others. The group decided to submit a proposal to Thriving Earth Exchange for support and assistance in direction. Thriving Earth Exchange (TEX), an initiative and program within the American Geophysical Union (AGU), strives to unite communities, scientists, partners, and stakeholders to engage in a community science process that addresses community-level issues related to natural hazards, natural resources, and climate change. The group formalized their project as a Thriving Earth Team (including all authors of this manuscript) with the title "Engaging community to protect the Pinole Creek Watershed: Assessment of trash impacts to promote a thriving ecosystem. " Abstract California is one of the only states actively managing trash in its rivers. Several community groups in Pinole, CA, USA collaborated on a Thriving Earth Exchange community science project. Its purpose was to assess the trash in Pinole Creek and identify policy development opportunities for the community. The key scientific questions were: how much trash was in the creek at the time of the study, what types of trash were most abundant, and where should the community be most concerned about trash in the creek? The team enlisted additional community volunteers at local events. A randomized sampling design and a community science-adapted version of The San Francisco Estuary Institute's Trash Monitoring Playbook was used to survey the trash in the creek. The Thriving Earth Team estimated there were 37 m 3 and 47,820 pieces of total trash in the creek channel with an average concentration of 2 m 3 per km and 2,697 pieces per km. The community gained an understanding of the scale of the problem. Plastic and single-use trash were most abundant, and the community members expressed high concern about plastic single-use food packaging and tobacco-related waste. The community identified locations in the creek where trash was abundant and prioritized follow-up study locations. Seven new recommendations were presented to the Pinole City Council. The City Council unanimously voted to further discuss ordinance-related recommendations. And that was when community science contributed to local policy development.
A DPLL Algorithm with Literal Renaming Strategy

Restricted on the proof of unsatisfiability of unsatisfiable formulas, a modified DPLL — RSMLS algorithm is presented. The new algorithm has a symmetry rule (Literal renaming ) and three simplified rule ((1,*)-Resolution, Subformula, and Multiple ). As an example, RSMLS algorithm is applied for the proof of unsatisfiability of pigeon-hole formula . We show with respect to RSMLS algorithm that has a refutation tree with at most O(n n n P 1 − n n P 1 − 3 ) nodes.
Comparison of Host Expression Systems used for Efficient Recombinant Proteins Production

The marvels of DNA recombination technology have revolutionized the field of biotechnology. Several hormones, antibody subunits, vaccines, enzymes, and interferons are being produced at the industrial level, in suitable expression systems, under optimized conditions. For recombinant protein production, a range of expression systems are available such as bacteria, yeast, fungi, plant cells, insects and animal cells, etc. Each recombinant protein has different nature due to which it requires different challenges regarding the expression system and production conditions. Every expression system has its advantages and limitations on the basis of which it can be considered or rejected for a particular protein production. Therefore, it is very significant to investigate the potential and limitations of several expression systems to choose the suitable one for particular protein production at an industrial scale. The optimization criteria of an expression system is evaluated on several factors such as productivity, efficiency, physiological characteristics, total cost, safety, convenience, and down-streaming conditions. Escherichia coli and Saccharomyces cerevisiae remained the organisms of choice to produce recombinant proteins for a long time, but now several other microorganisms are also being targeted to evaluate their efficiency toward recombinant protein production. Prokaryotic expression systems can be used to produce eukaryotic proteins as well however, the use of a eukaryotic expression system is preferable because it retains the structural, functional, and regulatory properties of therapeutic proteins. This review illustrates a brief view of a variety of expression systems, their efficiency, and limitations in recombinant protein production.
SeDeM expert system with I-optimal mixture design for oral multiparticulate drug delivery: An encapsulated floating minitablets of loxoprofen Na and its in silico physiologically based pharmacokinetic modeling

Introduction: A SeDeM expert tool-driven I-optimal mixture design has been used to develop a directly compressible multiparticulate based extended release minitablets for gastro-retentive drug delivery systems using loxoprofen sodium as a model drug. Methods: Powder blends were subjected to stress drug-excipient compatibility studies using FTIR, thermogravimetric analysis, and DSC. SeDeM diagram expert tool was utilized to assess the suitability of the drug and excipients for direct compression. The formulations were designed using an I-optimal mixture design with proportions of methocel K100M, ethocel 10P and NaHCO3 as variables. Powder was compressed into minitablets and encapsulated. After physicochemical evaluation lag-time, floating time, and drug release were studied. Heckel analysis for yield pressure and accelerated stability studies were performed as per ICH guidelines. The in silico PBPK Advanced Compartmental and Transit model of GastroPlus™ was used for predicting in vivo pharmacokinetic parameters. Results: Drug release follows first-order kinetics with fickian diffusion as the main mechanism for most of the formulations; however, a few formulations followed anomalous transport as the mechanism of drug release. The in-silico-based pharmacokinetic revealed relative bioavailability of 97.0%. Discussion: SeDeM expert system effectively used in QbD based development of encapsulated multiparticulates for once daily administration of loxoprofen sodium having predictable in-vivo bioavailability.
Antioxidant Potential of Glutathione and Crosstalk with Phytohormones in Enhancing Abiotic Stress Tolerance in Crop Plants

Glutathione (GSH) is an abundant tripeptide that can enhance plant tolerance to biotic and abiotic stress. Its main role is to counter free radicals and detoxify reactive oxygen species (ROS) generated in cells under unfavorable conditions. Moreover, along with other second messengers (such as ROS, calcium, nitric oxide, cyclic nucleotides, etc.), GSH also acts as a cellular signal involved in stress signal pathways in plants, directly or along with the glutaredoxin and thioredoxin systems. While associated biochemical activities and roles in cellular stress response have been widely presented, the relationship between phytohormones and GSH has received comparatively less attention. This review, after presenting glutathione as part of plants’ feedback to main abiotic stress factors, focuses on the interaction between GSH and phytohormones, and their roles in the modulation of the acclimatation and tolerance to abiotic stress in crops plants.
Magnitude conversion problem using general orthogonal regression

SUMMARY In this study, a procedure for the application of general orthogonal regression (GOR) towards conversion of different magnitude types is described. Through minimization of the squares of orthogonal residuals, GOR relation is obtained in terms of the abscissas (Mx*) of the projected points corresponding to the observed data pairs (Mx, obs, My, obs). In many studies, Mx* is replaced by Mx, obs in the GOR relation for convenience of obtaining the estimates of a preferred magnitude type for given magnitude values. Such forms of GOR, however, lead to biased estimates of the dependent variable. To represent the GOR relation correctly in terms of Mx, obs, a linear relation has been obtained between Mx* and Mx, obs using given points and the corresponding projected points on the GOR line. Based on events data for the whole globe during the period 1976–2007, GOR relations have been derived for conversion of mb to Mw,mb to Ms,mb to Me and Ms to Mw following the proposed procedure and using specific error variance ratio (η) values. The superiority of the GOR relations obtained following the proposed procedure over the commonly used forms has been shown by computing the absolute average difference and standard deviation between the observed and the estimated values using events data not used in the derivation. It is observed that the proposed GOR relations yield better estimates compared to the commonly used GOR forms. This procedure has been further tested for a wide range of η values between 0.1 and 7.0. The procedure proposed in this study can be used for the purpose of catalogue homogenization where GOR relations are applicable for conversion of different magnitude types.
Generalised fast algorithm for computing multiplicative inverses in GF(2/sup m/)

The authors have already proposed two types of fast algorithms for computing multiplicative inverses in GF(2/sup m/), one is sequential and the other is recursive. In this letter, they present a generalised fast algorithm for multiplicative inverses in GF(2/sup m/), which makes use of every subfield of GF(2/sup m/).
Salient region detection for object tracking

In this paper, we propose an algorithm for salient region detection, which can be used in object detection, tracking, video monitoring, and other machine vision fields. The proposed algorithm firstly computes the global similarity between video frames to create a similarity map. Then it finds the coarse positions of moving regions in the similarity map. Finally, the moving objects are obtained by computing color similarity. The experimental results show that the proposed algorithm can detect salient regions effectively and can extract the moving objects in video sequences with static background.
Type I Ultraluminous Infrared Galaxies: Transition Stage from ULIRGs to QSOs

We examine whether the ultraluminous infrared galaxies that contain a type 1 Seyfert nucleus (a type I ULIRG) are in the transition stage from ULIRGs to quasi-stellar objects (QSOs). To investigate this issue, we compare the black hole (BH) mass, the bulge luminosity, and the far-infrared luminosity among type I ULIRGs, QSOs, and elliptical galaxies. As a result, we find the following results: (1) The type I ULIRGs have systematically smaller BH masses in spite of the comparable bulge luminosity relative to QSOs and elliptical galaxies. (2) The far-infrared luminosity of most type I ULIRGs is larger than the Eddington luminosity. We show that the above results do not change significantly for three type I ULIRGs for which we can estimate the visual extinction from the column density. Also, for all eight type I ULIRGs, we investigate the effect of uncertainties of BH mass measurements and our sample bias to make sure that our results are not altered even if we consider the above two effects. In addition, Anabuki recently revealed that their X-ray properties are similar to those of the narrow-line Seyfert 1 galaxies. These would indicate that active galactic nuclei (AGNs) with a high mass accretion rate exist in type I ULIRGs. On the basis of all of these findings, we conclude that it would be a natural interpretation that type I ULIRGs are the early phase of BH growth, namely, the missing link between ULIRGs and QSOs. Moreover, by comparing our results with a theoretical model of a coevolution scenario of a QSO BH and a galactic bulge, we show clearly that this explanation could be valid.
Proteomics- and Metabolomics-Based Analysis of Metabolic Changes in a Swine Model of Pulmonary Hypertension

Pulmonary vein stenosis (PVS) causes a rare type of pulmonary hypertension (PH) by impacting the flow and pressure within the pulmonary vasculature, resulting in endothelial dysfunction and metabolic changes. A prudent line of treatment in this type of PH would be targeted therapy to relieve the pressure and reverse the flow-related changes. We used a swine model in order to mimic PH after PVS using pulmonary vein banding (PVB) of the lower lobes for 12 weeks to mimic the hemodynamic profile associated with PH and investigated the molecular alterations that provide an impetus for the development of PH. Our current study aimed to employ unbiased proteomic and metabolomic analyses on both the upper and lower lobes of the swine lung to identify regions with metabolic alterations. We detected changes in the upper lobes for the PVB animals mainly pertaining to fatty acid metabolism, reactive oxygen species (ROS) signaling and extracellular matrix (ECM) remodeling and small, albeit, significant changes in the lower lobes for purine metabolism.
Large Amplitude Free Vibrations of Shells of Variable Thickness—A New Approach

Large-amplitude free vibrations of thin elastic shallow spherical and cylindrical shells of nonuniform thickness have been investigated following a new approach. Numerical results for movable as well as for immovable edge conditions are given in tabular forms and compared with other results. Nomenclature A = nondimensional amplitude D = modulus of rigidity E = Young's modulus e,e2 = first and second strain invariants of the middle surface el9e2 = newly defined strain invariants h - shell thickness k = curvature at the middle surface, in case of cylindrical shell R = radius of the base of the spherical shell R0 = radius of the spherical shell r,0 = polar coordinates T - kinetic energy V, V{ = potential energy of spherical and cylindrical shells, respectively w0(/) = unspecified function of time x,y - Cartesian coordinates a = normalized constant of integration ex,ey,yxy = strain components in Cartesian coordinates in middle surface p = density of the shell material v - Poisson's ratio of the shell material
A Novel Weighted-Cooperative Spectrum Sensing Scheme Using Clustering

This paper proposes a novel weighted-cooperative spectrum sensing scheme using clustering for cognitive radio system. We firstly classify the secondary users into a few clusters according to several existent methods, and then use cluster-head to collect the observation results come from different secondary users in the same cluster and make a cluster-decision. Considering the different distances between the clusters and the fusion center, different weightings are used to weight the cluster-decisions before combining. The simulation results show that our proposed method improve the probability of detection and reduce the probability of error.
Newtonian power curve and drop size distributions for vibromixers

Power input data are presented for a twin flat disk up-and-down moving (vibromixer) impeller operating in a small vessel with a range of Newtonian Liquids. Vibromixer power number and Reynolds number are defined and are used to establish the Newtonian power curve for this type of mixer. Drop size distributions are presented for xylene-in-water dispersions under turbulent flow conditions in the vibromixer and are shown to vary with the maximum velocity of the disk (2 pi Af). The Sauter mean drop diameter of the distribution is related to the vibromixer Weber number, (We = rho(2 pi Af)D-2/sigma), by an equation of the type d(32)/D = C (We)(-3/5) with the coefficient C = 0.37.
A COMPUTATIONAL PROCEDURE FOR A COVERAGE PROBLEM FOR MULTIPLE SHOTS

Abstract : A frequently occurring problem in weapon systems analysis is the computation of expected fractional damage of an area target engaged by a salvo of area damaging rounds. Of particular interest is the case involving both round to round and occasion to occasion errors. When the number of rounds is large, the available solutions may encounter acute computational difficulty. This report presents a computational procedure, using Jacobi polynomials, which overcomes this difficulty.
Evaluation of mechanical and biological properties of akermanite/poly-ether-ether- ketone composite fabricated by high- temperature laser powder bed fusion

High-temperature laser bed powder fusion (HT-LPBF) technology is an ideal method for processing poly-ether-ether-ketone (PEEK) implants with personalized bionic structures, but the biological inertia of PEEK limits its medical applications. In this study, we evaluated the mechanical and biological properties of a novel akermanite (AKM)/PEEK composite for HT-LPBF. The results showed that tiny AKM particles are evenly attached to the surface of the PEEK particle. The delayed peak crystallization temperature and stable sintering window ensure the processing feasibility of the AKM/PEEK composites. The tensile strength and Young’s modulus are in the range of 30.83–98.73 MPa and 2.27–3.71 GPa, respectively, which can match the properties of cancellous bones and meet their implanting requirement. The CCK-8 experiments demonstrated the biocompatibility of the composites and the good proliferation of bone marrow stromal cells. The dense hydroxyapatite network layer and petal-like hydroxyapatite demonstrates biological activity, indicating that the composite has a good potential in the orthopedics fields.
The BALB/c Mouse Model for the Evaluation of Therapies to Treat Infections with Aerosolized Burkholderia pseudomallei

Burkholderia pseudomallei, the causative agent of the disease melioidosis, has been isolated from the environment in 45 countries. The treatment of melioidosis is complex, requiring lengthy antibiotic regimens, which can result in the relapse of the disease following treatment cessation. It is important that novel therapies to treat infections with B. pseudomallei be assessed in appropriate animal models, and discussions regarding the different protocols used between laboratories are critical. A ‘deep dive’ was held in October 2020 focusing on the use of the BALB/c mouse model and the inhalational route of infection to evaluate new antibiotic therapies.
Use of an entropy‐based metric in multiobjective calibration to improve model performance

Parameter estimation for hydrological models is complicated for many reasons, one of which is the arbitrary emphasis placed, by most traditional measures of fit, on various magnitudes of the model residuals. Recent research has called for the development of robust diagnostic measures that provide insights into which model structural components and/or data may be inadequate. In this regard, the flow duration curve (FDC) represents the historical variability of flow and is considered to be an informative signature of catchment behavior. Here we investigate the potential of using the recently developed conditioned entropy difference metric (CED) in combination with the Kling‐Gupta efficiency (KGE). The CED respects the static information contained in the flow frequency distribution (and hence the FDC), but does not explicitly characterize temporal dynamics. The KGE reweights the importance of various hydrograph components (correlation, bias, variability) in a way that has been demonstrated to provide better model calibrations than the commonly used Nash‐Sutcliffe efficiency, while being explicitly time sensitive. We employ both measures within a multiobjective calibration framework and achieve better performance over the full range of flows than obtained by single‐criteria approaches, or by the common multiobjective approach that uses log‐transformed and untransformed data to balance fitting of low and high flow periods. The investigation highlights the potential of CED to complement KGE (and vice versa) during model identification. It is possible that some of the complementarity is due to CED representing more information from moments >2 than KGE or other common metrics. We therefore suggest that an interesting way forward would be to extend KGE to include higher moments, i.e., use different moments as multiple criteria.