Miracle-dz/UniFAR-FTUs huggingface dataset:
Design of cell expansion processes for adherent‐growing cells with mDoE‐workflow

Adherent cells, mammalian or human, are ubiquitous for production of viral vaccines, in gene therapy and in immuno‐oncology. The development of a cell‐expansion process with adherent cells is challenging as scale‐up requires the expansion of the cell culture surface. Microcarrier (MC)‐based cultures are still predominate. However, the development of MC processes from scratch possesses particular challenges due to their complexity. A novel approach for the reduction of development times and costs of cell propagation processes is the combination of mathematical process models with statistical optimization methods, called model‐assisted Design of Experiments (mDoE). In this study, an mDoE workflow was evaluated successfully for the design of a MC‐based expansion process of adherent L929 cells at a very early stage of development with limited prior knowledge. At the start, the analytical methods and the screening of appropriate MCs were evaluated. Then, cause‐effect relationships (e.g., cell growth related to medium conditions) were worked out, and a mathematical process model was set‐up and adapted to experimental data for modeling purposes. The model was subsequently used in mDoE to identify optimized process conditions, which were proven experimentally. An eight‐fold increase in cell yield was achieved basically by reducing the initial MC concentration.
Improving the Modeling of Extracellular Ligand Binding Pockets in RosettaGPCR for Conformational Selection

G protein-coupled receptors (GPCRs) are the largest class of drug targets and undergo substantial conformational changes in response to ligand binding. Despite recent progress in GPCR structure determination, static snapshots fail to reflect the conformational space of putative binding pocket geometries to which small molecule ligands can bind. In comparative modeling of GPCRs in the absence of a ligand, often a shrinking of the orthosteric binding pocket is observed. However, the exact prediction of the flexible orthosteric binding site is crucial for adequate structure-based drug discovery. In order to improve ligand docking and guide virtual screening experiments in computer-aided drug discovery, we developed RosettaGPCRPocketSize. The algorithm creates a conformational ensemble of biophysically realistic conformations of the GPCR binding pocket between the TM bundle, which is consistent with a knowledge base of expected pocket geometries. Specifically, tetrahedral volume restraints are defined based on information about critical residues in the orthosteric binding site and their experimentally observed range of Cα-Cα-distances. The output of RosettaGPCRPocketSize is an ensemble of binding pocket geometries that are filtered by energy to ensure biophysically probable arrangements, which can be used for docking simulations. In a benchmark set, pocket shrinkage observed in the default RosettaGPCR was reduced by up to 80% and the binding pocket volume range and geometric diversity were increased. Compared to models from four different GPCR homology model databases (RosettaGPCR, GPCR-Tasser, GPCR-SSFE, and GPCRdb), the here-created models showed more accurate volumes of the orthosteric pocket when evaluated with respect to the crystallographic reference structure. Furthermore, RosettaGPCRPocketSize was able to generate an improved realistic pocket distribution. However, while being superior to other homology models, the accuracy of generated model pockets was comparable to AlphaFold2 models. Furthermore, in a docking benchmark using small-molecule ligands with a higher molecular weight between 400 and 700 Da, a higher success rate in creating native-like binding poses was observed. In summary, RosettaGPCRPocketSize can generate GPCR models with realistic orthosteric pocket volumes, which are useful for structure-based drug discovery applications.
Machine-Learning-Assisted Antenna Optimization With Data Augmentation

In this letter, a machine-learning-assisted antenna optimization method is proposed based on the random forest (RF) algorithm with data augmentation (DA). Using only a small number of samples, the prediction and optimization accuracy of the RF algorithm is ensured with repeated DA, which balances different types of samples during the training. With the proposed DA-RF method, the AR bandwidth of a circularly polarized omnidirectional base station antenna is optimized. By learning the relationship between the loop orientations and the AR bandwidth efficiently, the AR bandwidth is improved by 41% compared with the best one in the samples. The estimation accuracy of the proposed method outperforms other similar methods, with fewer iterations as well. The method is also successfully applied to multi-objective optimizations.
Matching method based on Harris operator and wavelet pyramid

A matching method for remote sensing images based on Harris operator and wavelet pyramid is proposed.After the multi-resolution remote sensing images have been pre-processed,Harris operator is employed as a corner detector for extracting feature points.Subsequently,image-pyramids are constructed by wavelet transform,and then performed matching to images is performed.The experiment in matching Hangzhou TM and SPOT images demonstrates an exactness and speediness result.
Support-Material-Free Microfluidics on an Electrochemical Sensors Platform by Aerosol Jet Printing

Printed electronics have led to new possibilities in the detection and quantification of a wide range of molecules important for medical, biotechnological, and environmental fields. The integration with microfluidics is often adopted to avoid hand-deposition of little volumes of reagents and samples on miniaturized electrodes that strongly depend on operator’s skills. Here we report design, fabrication and test of an easy-to-use electrochemical sensor platform with microfluidics entirely realized with Aerosol Jet Printing (AJP). We printed a six-electrochemical-sensors platform with AJP and we explored the possibility to aerosol jet print directly on it a microfluidic structure without any support material. Thus, the sacrificial material removal and/or the assembly with sensors steps are avoided. The repeatability observed when printing both conductive and ultraviolet (UV)-curable polymer inks can be supported from the values of relative standard deviation of maximum 5% for thickness and 9% for line width. We designed the whole microfluidic platform to make the sample deposition (20 μL) independent from the operator. To validate the platform, we quantified glucose at different concentrations using a standard enzyme-mediated procedure. Both mediator and enzyme were directly aerosol jet printed on working electrodes (WEs), thus the proposed platform is entirely fabricated by AJP and ready to use. The chronoamperometric tests show limit of detection (LOD) = 2.4 mM and sensitivity = 2.2 ± 0.08 µA/mM confirming the effectiveness of mediator and enzyme directly aerosol jet printed to provide sensing in a clinically relevant range (3–10 mM). The average relative standard inter-platform deviation is about 8%. AJP technique can be used for fabricating a ready-to-use microfluidic device that does not need further processing after fabrication, but is promptly available for electrochemical sample analysis.
Application of Self-Assembled Polyarylether Substrate in Flexible Organic Light-Emitting Diodes

The structure used in this study is as follows: substrate/PMMA/ZnS/Ag/MoO3/NPB/Alq3/LiF/Al. Here, PMMA serves as the surface flattening layer, ZnS/Ag/MoO3 as the anode, NPB as the hole injection layer, Alq3 as the emitting layer, LiF as the electron injection layer, and aluminum as the cathode. The properties of the devices with different substrates were investigated using P4 and glass, developed in the laboratory, as well as commercially available PET. After film formation, P4 creates holes on the surface. The light field distribution of the device was calculated at wavelengths of 480 nm, 550 nm, and 620 nm using optical simulation. It was found that this microstructure contributes to light extraction. The maximum brightness, external quantum efficiency, and current efficiency of the device at a P4 thickness of 2.6 μm were 72,500 cd/m2, 1.69%, and 5.68 cd/A, respectively. However, the maximum brightness of the same structure with PET (130 μm) was 9500 cd/m2. The microstructure of the P4 substrate was found to contribute to the excellent device performance through analysis of the AFM surface morphology, film resistance, and optical simulation results. The holes formed by the P4 substrate were created solely by spin-coating the material and then placing it on a heating plate to dry, without any special processing. To confirm the reproducibility of the naturally formed holes, devices were fabricated again with three different emitting layer thicknesses. The maximum brightness, external quantum efficiency, and current efficiency of the device at an Alq3 thickness of 55 nm were 93,400 cd/m2, 1.7%, and 5.6 cd/A, respectively.
DUDAHART: Stata module to calculate and graph Duda-Hart cluster stopping indices from distance matrix

-dudahart- calculates the Duda-Hart Je(2)/Je(1) index and its T-squared for stopping rules in cluster analysis, from the pairwise distance matrix. This is widely used to determine the optimum number of clusters. Stata's default -cluster stop, rule(duda)- does the same calculation on the basis of the original variables, but cannot operate on the distance matrix.
Communications in Mathematical Physics Anyonic Chains – α-Induction – CFT – Defects –

Given a unitary fusion category, one can define theHilbert space of a so-called “anyonic spin-chain” and nearest neighborHamiltonians providing a real-time evolution. There is considerable evidence that suitable scaling limits of such systems can lead to 1 + 1-dimensional conformal field theories (CFTs), and in fact, can be used potentially to construct novel classes of CFTs. Besides the Hamiltonians and their densities, the spin chain is known to carry an algebra of symmetry operators commuting with the Hamiltonian, and these operators have an interesting representation as matrix-productoperators (MPOs). On the other hand, fusion categories are well-known to arise from a von Neumann algebra-subfactor pair. In this work, we investigate some interesting consequences of such structures for the corresponding anyonic spin-chain model. One of our main results is the construction of a novel algebra of MPOs acting on a bipartite anyonic chain. We show that this algebra is precisely isomorphic to the defect algebra of 1+1 CFTs as constructed by Fröhlich et al. and Bischoff et al., even though the model is defined on a finite lattice. We thus conjecture that its central projections are associated with the irreducible vertical (transparent) defects in the scaling limit of the model. Our results partly rely on the observation that MPOs are closely related to the so-called “double triangle algebra” arising in subfactor theory. In our subsequent constructions, we use insights into the structure of the double triangle algebra by Böckenhauer et al. based on the braided structure of the categories and on α-induction. The introductory section of this paper to subfactors and fusion categories has the character of a review.
A system dynamics model to analyse the impact of environment and economy on scenic’s sustainable development via a discrete graph approach

Sustainable development is the key factor which attracts managers and scenic scholars attention. In the scenic system, economic subsystem, environment subsystem and scenic space subsystem are the major factors affecting the scenic sustainable development. In this paper, we analyze the relationship among them and build a system dynamics model to simulate the operation of scenic system which can show scenic states in the future. In order to provide workable proposals for sustainable development, we take Jiuzhai Valley as a research object, and use sensitivity analysis to find the impact of quantity of pollutants discharged, quantity of pollutants disposed, and average daily tourist reception capacity on the scenic development. From the sensitivity analysis, we conclude that adjusting quantity of pollutants discharged and disposed and average daily tourist reception capacity can improve the sustainable development of scenic. Finally, Some suggestions are put forward to Jiuzhai Valley managers.
Simple and multiple linear regression for probability of detection

This paper is intended to show the methodology for extending Probability of Detection (POD) modeling for continuously-valued (â vs a) signal responses to allow for the addition of multiple factors beyond the simple flaw size model, along with higher-level interactions. The statistical methodology for correctly transforming these more complex linear models into probability of detection curves is provided, and the approach is illustrated with a motivating real-world POD study
Bupropion-Induced Myoclonus: Case Report and Review of the Literature

Bupropion is an atypical antidepressant agent approved for treating major depressive disorders and prescribed for smoking cessation, attention deficit hyperactive disorder (ADHD), and sexual dysfunction. In a few cases, bupropion was associated with myoclonus. We present a case of a 58-year-old male, a heavy smoker seeking smoking cessation, was prescribed bupropion 150 mg twice daily. The subject doubled the dosage without medical advice. After 3 days of the increased dosage, he started to experience abnormal movements in his upper limbs associated with diffuse facial twitching. Neuroimaging, electrodiagnostic studies, and laboratory exams were unremarkable. Bupropion was discontinued, and clonazepam was initiated. The subject fully recovered within 24 hours. To the authors’ knowledge, only 8 cases of bupropion-induced myoclonus were reported in the literature. Bupropion discontinuation was the most common management. All individuals except 2 cases fully recovered after bupropion withdrawal. The mechanism of bupropion is probably associated with the serotoninergic pathway.
Party Affiliation, District-Level Incentives and the Use of Parliamentary Questions in Chile's Presidential Democracy

The issuance of parliamentary questions (PQ) in presidential democracies reflects an effort to connect with the electoral constituency to advance the legislator's career. We postulate six hypotheses on the association between party affiliation, career advancement and district-level incentives and the issuance of PQs in Chile's presidential multiparty democracy. We test them using a novel dataset containing 68,424 inquiries (oficios legislativos) issued by Chamber of Deputies legislators in three legislative terms (2006–2018). Though district-level variables play a role in the issuance of PQs, incentives of political ambition do not. As opposition coalition legislators make more use of PQs than ruling coalition legislators, there is preliminary evidence to associate PQs with a possible oversight role.
Chemical Profile Determination and Quantitative Analysis of Components in Oryeong-san Using UHPLC-Q-Orbitrap-MS and UPLC-TQ-MS/MS

In this study, a method to both qualitatively and quantitively analyze the components of Oryeong-san (ORS), which is composed of five herbal medicines (Alisma orientale Juzepzuk, Polyporus umbellatus Fries, Atractylodes japonica Koidzumi, Poria cocos Wolf, and Cinnamomum cassia Presl) and is prescribed in traditional Oriental medicine practices, was established for the first time. First, ORS components were profiled using ultra-high-performance liquid chromatography/quadrupole Orbitrap mass spectrometry, and 19 compounds were clearly identified via comparison against reference standard compounds. Subsequently, a quantitative method based on ultra-high-performance liquid chromatography coupled with triple-quadrupole tandem mass spectrometry was established to simultaneously measure the identified compounds. Nineteen compounds were accurately quantified using the multiple-reaction-monitoring mode and used to analyze the sample; we confirmed that coumarin was the most abundant compound. The method was validated, achieving good linearity (R2 ≤ 0.9991), recovery (RSD, 0.11–3.15%), and precision (RSD, 0.35–9.44%). The results suggest that this method offers a strategy for accurately and effectively determining the components of ORS, and it can be used for quality assessment and management.
MHD Turbulence in an Accretion Disk

Abstract A long-standing problem in the theory of astrophysical accretion disks has been to determine the nature of the stress that transports orbital angular momentum outward. The discovery of a local MHD instability is strong evidence that transport occurs through turbulent Maxwell and Reynolds stresses. Using numerical simulations, we have demonstrated that a weak seed magnetic field in an accretion disk shear flow is unstable and leads to sustained MHD turbulence at dynamically important levels.
Integrated Silicon Photonic Reservoir Computing With PSO Training Algorithm for Fiber Communication Channel Equalization

An optical channel distortion equalization method based on silicon photonic reservoir computing (PhRC) structure with particle swarm optimization (PSO) algorithm is proposed. The weights training scheme of the photonic readout layer of PhRC is trained by PSO algorithm towards a lower bit error rate (BER) and a better eye diagram, simultaneously. The self-organizing evolutionary PSO algorithm enables fast convergence and iterative optimization for training optical weights. Without the necessary the reservoir signal states obtained from the monitors, it eliminates the noise introduced by the optical monitors. We implement a system-level simulation, including RC structure, training algorithm, and fiber communication construction. Because of the excellent performance of the PSO training algorithm, a BER of 9.15 × 10−5 is obtained with the 25 Gb/s on-off keying (OOK) input signal in the case of 25 km single-mode transmission. This BER result is three orders of magnitude lower than that before the equalization. This equalizer mitigates the processing bandwidth limit and provides a distorted signals equalization method in the optical domain with simple and effective training strategy. This method shows much potential in high speed optical communication channel equalization in the future.
The role of irradiance in controlling coralline algal calcification

Coralline algae are an essential element of benthic ecosystems throughout the ocean's photic zone. Yet, the role of light in shaping the physiology of coralline algae from cold‐water, low‐light habitats is poorly understood. Here, we assess the calcification physiology of five cool temperate coralline algae in response to different irradiance levels over 3 months. We show that in contrast to current models focused on warmer water species, previously observed enhancement of calcification rates by photosynthesis is largely limited to lower irradiances, and that the removal of CO2 from the calcifying fluid is not the underlying mechanism of this enhancement. Instead, this most likely occurs via two processes: (1) increased ion pumping rates to elevate the calcium carbonate saturation state in the calcifying fluid; and (2) a higher daytime pH in the diffusion boundary layer that raises calcifying fluid pH. However, as irradiance increases, ion pumping becomes increasingly saturated limiting further enhancements. Our results also suggest the existence of two calcification strategies in coralline algae and indicate that magnesium incorporation is determined by the magnesium to calcium ratio in the calcifying fluid ([Mg]CF/[Ca]CF). This study adds to our mechanistic understanding of calcification in coralline algae and fills in much needed knowledge about the role of light in controlling their physiology.
Age-Related Fourier-Transform Infrared Spectroscopic Changes in Protein Conformation in an Aging Model of Human Dermal Fibroblasts

The loss of proteostasis, which results in the accumulation of misfolded proteins, is one of the hallmarks of aging and is frequently associated with the aging process. Fibroblasts are a cellular model widely used in the study of aging and can mimic the loss of proteostasis that occurs in the human body. When studying human aging using fibroblasts, two approaches can be used: fibroblasts from the same donor aged in vitro until senescence or fibroblasts from donors of different ages. A previous study by our group showed that the first approach can be used in the study of aging. Thus, this work aimed to study the spectroscopic profile of human dermal fibroblasts from four donors of different ages using Fourier-transform infrared spectroscopy to identify changes in protein conformation and to compare results with those obtained in the previous study. Partial least squares regression analysis and peak intensity analysis suggested that fibroblasts from older donors were characterized by an increase in the levels of antiparallel β-sheets and a decrease in intermolecular β-sheets, in agreement with our previous results.
Top Quark Physics at a Future Linear Collider

The International Linear Collider and Compact Linear Collider projects aim to build a linear electron-positron collider with a center-of-mass energy well above the top quark pair production threshold. In this contribution an overview is presented of the potential of their top quark precision physics programme. One of the highlights is a precise determination of the top quark mass through a scan of the center-of-mass energy around the pair production threshold, that is expected to yield a total uncertainty on the top quark MSbar mass of less than 50 MeV. The results of a full-simulation analysis are presented, including a discussion of the main systematic uncertainties. Full simulation results are also presented for measurements of the top quark couplings to the Z-boson and the photon. The anomalous form factors are expected to be constrained to better than 1%, significantly beyond the expected precision at the Large Hadron Collider. Further new results are presented for the sensitivity to non-standard top quark decays and its interaction with the Higgs boson.
Nib-Assisted Coaxial Electrohydrodynamic Jet Printing for Nanowires Deposition

This paper presents the concrete design of nanowires under the precise size and morphology that play a crucial role in the practical operation of the micro/nano devices. A straightforward and operative method termed as nib-assistance coaxial electrohydrodynamic (CEHD) printing technology was proposed. It extracts the essence of a nib-assistance electric field intensity to enhance and lessen the internal fluid reflux of the CEHD jet. The experiments were performed to add microparticles into the inner liquid to indicate the liquid flow consistency within the coaxial jet. The reflux in the coaxial jet was observed for the first time in experiments. The nanowires with a minimum size of 70 nm were printed under optimum experimental conditions. The nanopatterns contained aligned nanowires structures with diameters much smaller than the inner diameter of nozzle, relying on the coaxial nib-assisted technique. The printed results revealed that the nib-assisted CEHD printing technique offers a certain level high quality for application of NEMS system.