Miracle-dz/UniFAR-FTUs huggingface dataset:
Improving Efficiency of Rolling Production by Predicting Negative Technological Events

Improving the production efficiency is the task with the increasing difficulty. Therefore, it is important to constantly expand the set of tools and perfect the methodology for improving the processes. Some of the losses associated with the negative technological events (breaks, drifting, etc.) are difficult to eliminate completely due to the complexity of making changes to the basic technology. But if you know in advance that the event will occur, you can significantly reduce the probability and consequences, thereby significantly improve the efficiency of the production process. Therefore, it is important to develop and introduce the applied approaches to forecasting the negative technological events in the production processes. This paper presents the method of the forecast-event statistical analysis of the cause-and-effect relationships. The technique was tested on the events of strip’s breakage during rolling at the cold rolling mill 1400 and strip’s drifting in the input storage of the continuous etching unit (CEU). Based on the presented methodology, the specialized digital service was developed and introduced in the production processes of the dynamo steels shop.
Features of High-Temperature Synthesis in Clad Mechanocomposites of Ti-Al System

The influence of mechanoactivated reagents cladding on the structural-phase state of the SHS-products was investigated. Titanium and aluminum powders were used as reagents. Mechanical activation was performed on the AGO-2 planetary ball mill. The coating on Ti+Al mechanocomposite was carried out using magnetron installation “VSE-PVD-Power”. At deposition time of 40 minutes, the reaction start temperature increases from 525 °C to 648 °C (compared to reagents without cladding). It can be assumed that an increase in the thickness of the deposited SiO2 film serves as a barrier to the reaction start, thereby increasing ignition temperature. Apart from pretreatment, the phase composition of the final product contains intermetallic compounds TiAl, TiAl3, Ti3Al5, as well as the small amount of residual Ti. The main phase is TiAl.
A Study of the Effect of Reaction Time on the Preparation of Zirconium Based UiO-66 MOF

UiO-66 is a zirconium-based metal organic framework (MOF). It was synthesized and used by researchers due to its high water, chemical and thermal stability. The mentioned reasons in addition to other excellent properties made them a highly competitive materials for a variety of industrial problems. This study investigates the effect of the reaction time on the characteristics of the prepared UiO-66 nanoparticles. UiO-66 was synthesized by the solvothermal method and the reaction was left to take place for 18, 21 and 24 hours. UiO-66 was characterized using X-ray Diffraction (XRD) and Fourier-Transform Infrared (FTIR), the results showed that it has the same patterns and functional groups of the previously reported UiO-66. In addition, Scanning Electron Microscopy (SEM) was used to confirm the morphology of UiO-66. The smallest particle size around 200 nm was obtained at 18 hours. To investigate the thermal stability of the prepared UiO-66, Thermogravimetry analysis (TGA) was conducted. The results matched well with the literature and confirm that UiO-66 is thermally stable up to 500°C.
Strength of AAAS Composites with Ceramic Precursor over Time

The paper deals with the approximation of the time evolution of the strengths of selected alkali-activated aluminosilicate (AAAS) composites based on ceramic precursors. Composites made of brick dust as a precursor and an alkaline activator with a silicate modulus of Ms = 0.8, 1.0, 1.2, 1.4, and 1.6 were investigated. The filler consisted of standard quartz sand in one case, and crushed brick in the other. The test specimens had nominal dimensions of 40 × 40 × 160 mm and were tested in three-point bending after 7, 28, 90, and 300 days of maturation. From each composite, 3 specimens were tested and the compressive strength was determined from the 6 specimen parts that remained after the bending tests. The obtained flexural and compressive strength values for the abovementioned 4 composite ages were approximated by the exponential function , where the coefficient a represents a horizontal asymptote to the approximation curve, i.e. the theoretical strength of the composite at time t = ∞; the exponential term of the approximation with the coefficients b and c expresses the degree of the time-dependent change of the respective compressive strength in the interval t = (0, ∞). The approximation was performed with the least squares method using genetic algorithms implemented in the Java GA package with open source code.
Basic Study on the Durability of Mortar Containing Blast Furnace Slag Fine Powder with Different Basicity

Chloride ions penetrated reinforced concrete structures. Corrosion of reinforcing bars occurs because of cracks due to corrosion expansion, which is a problem of chloride damage deteriorating structures' performance. Blast furnace slag (from now on referred to as "BFS") is the inevitable by-product of steel product manufacturing as sustainable materials. BFS is more effective in preventing corrosion of reinforcing bars in concrete due to the denser cured and its high ability to immobilize chloride ions. Thus, the influence of BFS on the durability of mortar using BFS powder with different basicity was studied by using "Standard on Test Methods for Chloride Ion Diffusion Coefficients in Concrete" by electrophoresis (Draft) (JSCE-G571-2003)" and the total chloride ion amount was measured following JIS R 5202. The result confirmed that the immobilization performance could be greatly improved by increasing the basicity. It was remarkable in the case of air curing, a curing method for available precast products.
Synthesis of Poly(Methyl Methacrylate) Reinforced by Graphene Nanoplates

Graphene nanoplatelets (GNPs) was used as a nanofiller in Poly(methyl methacrylate) (PMMA) synthesized by the Atom Transfer Radical Polymerization (ATRP) method. The first step in the synthesis of the PMMA/GNPs was the dispersion of GNPs in the PMMA liquid monomers by combining the solutions so that GNPs had superior mechanical properties, thermal stability, and electrical conductivity also lower density of mass. Then the crosslinked PMMA/GNPs nanocomposite samples were synthesized by using the in-situ polymerization method. However, there was a challenging technical problem in the application of GNPs (at a large amount) in the polymer. For the purpose of benefiting from the advantageous properties of GNPs (especially in bulk quantities) at PMMA, the major problem at the synthesis of PMMA/GNPs nanocomposite was the GNPs dispersion in the polymer matrix. This research has focused on solving that dispersion problem with the aim of enhancing the mechanical properties of the nanocomposite by utilizing the ATRP method as the effective production technic. The structural characterization of PMMA/GNPs nanocomposite was performed for the examination of the integration of GNPs in PMMA. The surface morphology of the nanocomposite was analyzed using SEM images. X-Ray Diffraction (XRD) as a non-destructive test method was used to examine the changes in the crystalline properties of the nanocomposite structure with the rise of the GNPs amount in PMMA. The bonding interactions with each other were investigated by using Raman analysis.
Multimodal magnetic resonance imaging analysis in the characteristics of Wilson’s disease: A case report and literature review

Abstract Wilson’s disease (WD) is an inherited disorder of copper metabolism. Multimodal magnetic resonance imaging (MRI) has been reported to provide evidence of the extent and severity of brain lesions. However, there are few studies related to the diagnosis of WD with multimodal MRI. Here, we reported a WD patient who was subjected to Sanger sequencing, conventional MRI, and multimodal MRI examinations, including susceptibility-weighted imaging (SWI) and arterial spin labeling (ASL). Sanger sequencing demonstrated two pathogenic mutations in exon 8 of the ATP7B gene. Slit-lamp examination revealed the presence of Kayser–Fleischer rings in both eyes, as well as low serum ceruloplasmin and high 24-h urinary copper excretion on admission. Although the substantia nigra, red nucleus, and lenticular nucleus on T1-weighted imaging and T2-weighted imaging were normal, SWI and ASL showed hypointensities in these regions. Besides, decreased cerebral blood flow was found in the lenticular nucleus and the head of caudate nucleus. The patient recovered well after 1 year and 9 months of follow-up, with only a Unified Wilson Disease Rating Scale score of 1 for neurological symptom. Brain multimodal MRI provided a thorough insight into the WD, which might make up for the deficiency of conventional MRI.
A Pilot Study To Establish an Ovalbumin-induced Atopic Dermatitis Minipig Model

Abstract Introduction Because minipig skin is similar to human skin in anatomy and physiology, establishing an atopic dermatitis (AD) minipig model seems meaningful. Material and Methods We applied 1-fluoro-2,4-dinitrobenzene (DNFB) or ovalbumin onto the back skin of five Yucatan minipigs aged 8–10 months and 19 kg in median weight. Two minipigs with the same parameters served as controls. Results Both DNFB and ovalbumin mediated epithelial hyperplasia, spongiosis, and immune cell infiltration in the dermis, which is a typical histopathological feature of AD. Moreover, AD upregulated the Th1- and Th2-related cytokine expressions in DNFB- or in ovalbumin-treated skin. Notably, AD-induced minipigs exhibited greater cytokine serum concentrations. Conclusion Histopathological finding and cytokine analysis revealed that DNFB or ovalbumin mediates AD. However, ovalbumin-treated minipig is a more reliable and precise AD model owing to the DNFB-induced severe skin damage. In summary, ovalbumin-treated skin shows similar AD as human in histopathological and molecular analysis.
Acoustic-roughness receptivity in subsonic boundary-layer flows over aerofoils

Abstract The generation of a viscous–inviscid instability through scattering of an acoustic wave by localised and distributed roughness on the upper surface of a NACA 0012 aerofoil is studied with a time-harmonic compressible adjoint linearised Navier–Stokes approach. This extends previous work by the authors dedicated to flat plate geometries. The key advancement lies in the modelling of the inviscid acoustic field external to the aerofoil boundary layer, requiring a numerical solution of the convected Helmholtz equation in a non-uniform inviscid field to determine the unsteady pressure field on the curved aerofoil surface. This externally imposed acoustic pressure field subsequently drives the acoustic boundary layer, which fundamentally determines the amplitudes of acoustic-roughness receptivity. A study of receptivity in the presence of Gaussian-shaped roughness and sinusoidally distributed roughness at Mach number $M_\infty =0.4$ and Strouhal numbers $\mathcal {S} \approx \{46,69,115\}$ shows the effects of various parameters, most notably angle of attack, angle of incidence of the externally imposed plane acoustic wave and geometry of surface roughness; the latter is varied from viewpoint of its placement on the aerofoil surface and its wavelength. The parametric study suggests that non-parallel effects are quite substantial and that considerable differences arise when using parallel flow theory to estimate the optimal width of Gaussian-shaped roughness elements to provoke the greatest response. Furthermore, receptivity amplitudes for distributed roughness are observed to be generally higher for lower angles of attack, i.e. for less adverse pressure gradients. It is also shown that the boundary layer is more receptive to upstream-travelling acoustic waves.
Transcriptomic analysis of astaxanthin hyper-producing Coelastrum sp. mutant obtained by chemical mutagenesis

A newly isolated green microalga, Coelastrum sp. has the capability to produce and accumulate astaxanthin under various stress conditions. At present, a mutant G1-C1 of Coelastrum sp. obtained through chemical mutagenesis using ethyl methane sulfonate displayed an improvement in astaxanthin accumulation, which was 2-fold higher than that of the wild-type. However, lack of genomic information limits the understanding of the molecular mechanism that leads to a high level of astaxanthin in the mutant G1-C1. In this study, transcriptome sequencing was performed to compare the transcriptome of astaxanthin hyper-producing mutant G1-C1 and wild-type of Coelastrum sp. with respect to astaxanthin biosynthesis. This is to clarify why the mutant produced higher astaxanthin yield compared to the wild-type strain. Based on the transcriptomic analysis, the differentially expressed genes involved in astaxanthin biosynthesis were significantly upregulated in the mutant G1-C1 of Coelastrum sp. Genes coding phytoene synthase, phytoene desaturase, ζ-carotene desaturase, and lycopene β-cyclase involved in β-carotene biosynthesis in the mutant cells were upregulated by 10-, 9.2-, 8.4-, and 8.7-fold, respectively. Genes coding beta-carotene ketolase and beta-carotene 3-hydroxylase involved in converting β-carotene into astaxanthin were upregulated by 7.8- and 8.0-fold, respectively. In contrast, the lycopene ε-cyclase gene was downregulated by 9.7-fold in mutant G1-C1. Together, these results contribute to higher astaxanthin accumulation in mutant G1-C1. Overall, the data in this study provided molecular insight for a better understanding of the differences in astaxanthin biosynthesis between the wild-type and mutant G1-C1 strains.
Confined migration promotes cancer metastasis through resistance to anoikis and increased invasiveness

Mechanical stress is known to fuel several hallmarks of cancer, ranging from genome instability to uncontrolled proliferation or invasion. Cancer cells are constantly challenged by mechanical stresses not only in the primary tumour but also during metastasis. However, this latter has seldom been studied with regards to mechanobiology, in particular resistance to anoikis, a cell death programme triggered by loss of cell adhesion. Here, we show in vitro that migrating breast cancer cells develop resistance to anoikis following their passage through microporous membranes mimicking confined migration (CM), a mechanical constriction that cancer cells encounter during metastasis. This CM-induced resistance was mediated by Inhibitory of Apoptosis Proteins (IAPs), and sensitivity to anoikis could be restored after their inhibition using SMAC mimetics. Anoikis-resistant mechanically-stressed cancer cells displayed enhanced cell motility and evasion from natural killer cell-mediated immune surveillance, as well as a marked advantage to form lung metastatic lesions in mice. Our findings reveal that CM increases the metastatic potential of breast cancer cells.
Manganese(ii) enhanced fluorescent nitrogen-doped graphene quantum dots: a facile and efficient synthesis and their applications for bioimaging and detection of Hg2+ ions

Manganese ion (Mn2+) bonded nitrogen-doped graphene quantum dots (Mn(ii)-NGQDs) with water solubility have been successfully synthesized by a simple, one-pot hydrothermal carbonization, using sodium citrate, glycine and manganese chloride as raw materials. The photoluminescence (PL) characteristics of Mn(ii)-NGQDs were studied in detail. The resulting Mn(ii)-NGQDs show a remarkably enhanced PL intensity and quantum yield (QY = 42.16%) compared with the product without Mn(ii)-doped (named as NG, QY = 27.06%) and the product doped with other metal ions. The Mn(ii)-NGQDs not only display low toxicity and high cellular uptake efficiency for fluorescence live cell imaging in biological evaluations but also exhibit a fast, highly selective and sensitive fluorescence quenching effect toward Hg2+ ions, with a detection limit of 3.4 × 10−8 mol L−1.
DeepANIS: Predicting antibody paratope from concatenated CDR sequences by integrating bidirectional long-short-term memory and transformer neural networks

Motivation Antibodies are a type of important biomolecules in the humoral immunity system, which can bind tightly to potential antigens with high affinity and specificity. An accurate identification of the paratope, the binding sites with antigens, is crucial for antibody mechanistic research and design. Although many methods have been developed for paratope prediction, further improvement of their accuracy is necessary. Results In this study, we concatenated the sequences of Complementarity Determining Regions (CDRs) within a single antibody to better capture nonlocal interactions between different CDRs and loop type-specific features for improving paratope prediction. We further integrated BiLSTM and transformer networks to gain the dependencies among the residues within the concatenated CDR sequences and to increase the interpretability of the model. The new method called DeepANIS (Antibody Interacting Site prediction) outperforms other antibody paratope prediction methods compared. Availability The DeepANIS method is freely available as a webserver at https://biomed.nscc-gz.cn:9094/apps/DeepANIS and for download at https://github.com/HideInDust/DeepANIS Contact yangyd25@mail.sysu. edu.cn or zhouyq@szbl.ac. cn Supplementary information Supplementary data are available at Bioinformatics online.
Machine learning predicts translation initiation sites in neurologic diseases with expanded repeats

A number of neurologic diseases, including a form of amyotrophic lateral sclerosis and others associated with expanded nucleotide repeats have an unconventional form of translation called repeat-associated non-AUG (RAN) translation. Repeat protein products accumulate and are hypothesized to contribute to disease pathogenesis. It has been speculated that the repeat regions in the RNA fold into secondary structures in a length-dependent manner, promoting RAN translation. Additionally, nucleotides that flank the repeat region, especially ones closest to the initiation site, are believed to enhance translation initiation. Recently, a machine learning model based on a large number of flanking nucleotides has been proposed for identifying translation initiation sites. However, most likely due to its extensive feature selection and limited training data, the model has diminished predictive power. Here, we overcome this limitation and increase prediction accuracy by a) capturing the effect of nucleotides most critical for translation initiation via feature reduction, b) implementing an alternative machine learning algorithm better suited for limited data, c) building comprehensive and balanced training data (via sampling without replacement) that includes previously unavailable sequences, and, d) splitting ATG and near-cognate translation initiation codon data to train two separate models. We also design a supplementary scoring system to provide an additional prognostic assessment of model predictions. The resultant models have high performance, with 85.00-87.79% accuracy exceeding that of the previously published model by >18%. The models presented here are then used to identify translation initiation sites in genes associated with a number of neurologic repeat expansion disorders. The results confirm a number of experimentally discovered sites of translation initiation upstream of the expanded repeats and predict many sites that are not yet established.
Nicotinate degradation in a microbial eukaryote: a novel, complete pathway extant in Aspergillus nidulans

Several strikingly different aerobic and anaerobic pathways of nicotinate utilization had been described in bacteria. No similar work is extant in any eukaryote. Here we elucidate a complete eukaryotic nicotinate utilization pathway, by constructing single or multiple gene deleted strains and identifying metabolic intermediates by ultra-high performance liquid chromatography – high-resolution mass spectrometry. Enzymes catalyzing each step and all intermediate metabolites were identified. We previously established that the cognate eleven genes organized in three clusters constitute a regulon, strictly dependent on HxnR, a pathway-specific transcription factor. The first step, hydroxylation of nicotinic acid to 6-hydroxynicotinic acid is analogous to that occurring in bacterial pathways and is catalyzed by an independently evolved molybdenum-containing hydroxylase. The following enzymatic steps have no prokaryotic equivalents: 6-hydroxynicotinic acid is converted to 2,3,6-trihydroxypyridine through 2,5-dihydroxypiridine and the trihydroxylated pyridine ring is then saturated to 5,6-dihydroxypiperidine-2-one followed by the oxidation of the C6 hydroxyl group resulting in 3-hydroxypiperidine-2,6-dione. The latter two heterocyclic compounds are newly identified cellular metabolites, while 5,6-dihydroxypiperidine-2-one is a completely new chemical compound. Ring opening between C and N results in α-hydroxyglutaramate, an unprecedented compound in prokaryotic nicotinate catabolic routes. The pathway extant in A. nidulans, and in many other ascomycetes, is different from any other previously analyzed in bacteria. Our earlier phylogenetic analysis of Hxn proteins together with the complete novel biochemical pathway we now describe further illustrates the convergent evolution of catabolic pathways between fungi and bacteria. Significance Statement This eukaryotic nicotinate catabolic pathway illustrates the convergent evolution of prokaryotic and microbial eukaryotic metabolism. It brings to light newly identified metabolites and step processing enzymes. The identification of hitherto undescribed metabolites - which could serve as precursor biosynthetic molecules - is potentially relevant to both pharmaceutical and agrochemical industries.
Superantigens promote Staphylococcus aureus bloodstream infection by eliciting pathogenic interferon-gamma (IFNγ) production that subverts macrophage function

Staphylococcus aureus is a foremost bacterial pathogen responsible for a vast array of human diseases. Staphylococcal superantigens (SAgs) constitute a family of potent exotoxins secreted by S. aureus, and SAg genes are found ubiquitously in human isolates. SAgs bind directly to MHC class II molecules and T cell receptors, driving extensive T cell activation and cytokine release. Although these toxins have been implicated in serious disease including toxic shock syndrome, we aimed to further elucidate the mechanisms by which SAgs contribute to staphylococcal pathogenesis during septic bloodstream infections. As most conventional mouse strains respond poorly to staphylococcal SAgs, we utilized transgenic mice encoding humanized MHC class II molecules (HLA-DR4) as these animals are much more susceptible to SAg activity. Herein, we demonstrate that SAgs contribute to the severity of S. aureus bacteremia by increasing bacterial burden, most notably in the liver. We established that S. aureus bloodstream infection severity is mediated by CD4+ T cells and interferon-gamma (IFNγ) is produced to very high levels during infection in a SAg-dependent manner. Bacterial burden and disease severity were reduced by antibody blocking of IFNγ, phenocopying isogenic SAg deletion mutant strains. Additionally, cytokine analysis demonstrated that the immune system was skewed towards a proinflammatory response that was reduced by IFNγ blocking. Infection kinetics and flow cytometry analyses suggested this was a macrophage driven mechanism, which was confirmed through macrophage depletion experiments. Further validation with human leukocytes indicated that excessive IFNγ allowed S. aureus to replicate at a higher rate within macrophages. Together, this suggests that SAgs promote S. aureus survival by manipulating immune responses that would otherwise be effective at clearing S. aureus. This work implicates SAg toxins as critical targets for preventing persistent or severe S. aureus disease.