bluuebunny/crossref_metadata_2025 huggingface dataset:
Biomarkers of Bladder Cancer: Cell-Free DNA, Epigenetic Modifications and Non-Coding RNAs
Authors: Harsanyi Stefan , Novakova Zuzana Varchulova , Bevizova Katarina , Danisovic Lubos , Ziaran Stanislav
Published: October 2022

Bladder cancer (BC) is the 10th most frequent cancer in the world. The initial diagnosis and surveillance of BC require a combination of invasive and non-invasive methods, which are costly and suffer from several limitations. Cystoscopy with urine cytology and histological examination presents the standard diagnostic approach. Various biomarkers (e.g., proteins, genes, and RNAs) have been extensively studied in relation to BC. However, the new trend of liquid biopsy slowly proves to be almost equally effective. Cell-free DNA, non-coding RNA, and other subcellular structures are now being tested for the best predictive and diagnostic value. In this review, we focused on published gene mutations, especially in DNA fragments, but also epigenetic modifications, and non-coding RNA (ncRNA) molecules acquired by liquid biopsy. We performed an online search in PubMed/Medline, Scopus, and Web of Science databases using the terms “bladder cancer”, in combination with “markers” or “biomarkers” published until August 2022. If applicable, we set the sensitivity and specificity threshold to 80%. In the era of precision medicine, the development of complex laboratory techniques fuels the search and development of more sensitive and specific biomarkers for diagnosis, follow-up, and screening of BC. Future efforts will be focused on the validation of their sensitivity, specificity, predictive value, and their utility in everyday clinical practice.
Using Alphafold2 to Predict the Structure of the Gp5/M Dimer of Porcine Respiratory and Reproductive Syndrome Virus
Authors: Veit Michael , Gadalla Mohamed Rasheed , Zhang Minze
Published: October 2022

Porcine reproductive and respiratory syndrome virus is a positive-stranded RNA virus of the family Arteriviridae. The Gp5/M dimer, the major component of the viral envelope, is required for virus budding and is an antibody target. We used alphafold2, an artificial-intelligence-based system, to predict a credible structure of Gp5/M. The short disulfide-linked ectodomains lie flat on the membrane, with the exception of the erected N-terminal helix of Gp5, which contains the antibody epitopes and a hypervariable region with a changing number of carbohydrates. The core of the dimer consists of six curved and tilted transmembrane helices, and three are from each protein. The third transmembrane regions extend into the cytoplasm as amphiphilic helices containing the acylation sites. The endodomains of Gp5 and M are composed of seven β-strands from each protein, which interact via β-strand seven. The area under the membrane forms an open cavity with a positive surface charge. The M and Orf3a proteins of coronaviruses have a similar structure, suggesting that all four proteins are derived from the same ancestral gene. Orf3a, like Gp5/M, is acylated at membrane-proximal cysteines. The role of Gp5/M during virus replication is discussed, in particular the mechanisms of virus budding and models of antibody-dependent virus neutralization.
2.4 GHz Electromagnetic Field Influences the Response of the Circadian Oscillator in the Colorectal Cancer Cell Line DLD1 to miR-34a-Mediated Regulation
Authors: Olejárová Soňa , Moravčík Roman , Herichová Iveta
Published: October 2022

Radiofrequency electromagnetic fields (RF-EMF) exert pleiotropic effects on biological processes including circadian rhythms. miR-34a is a small non-coding RNA whose expression is modulated by RF-EMF and has the capacity to regulate clock gene expression. However, interference between RF-EMF and miR-34a-mediated regulation of the circadian oscillator has not yet been elucidated. Therefore, the present study was designed to reveal if 24 h exposure to 2.4 GHz RF-EMF influences miR-34a-induced changes in clock gene expression, migration and proliferation in colorectal cancer cell line DLD1. The effect of up- or downregulation of miR-34a on DLD1 cells was evaluated using real-time PCR, the scratch assay test and the MTS test. Administration of miR-34a decreased the expression of per2, bmal1, sirtuin1 and survivin and inhibited proliferation and migration of DLD1 cells. When miR-34a-transfected DLD1 cells were exposed to 2.4 GHz RF-EMF, an increase in cry1 mRNA expression was observed. The inhibitory effect of miR-34a on per2 and survivin was weakened and abolished, respectively. The effect of miR-34a on proliferation and migration was eliminated by RF-EMF exposure. In conclusion, RF-EMF strongly influenced regulation mediated by the tumour suppressor miR-34a on the peripheral circadian oscillator in DLD1 cells.
FvNST1b NAC Protein Induces Secondary Cell Wall Formation in Strawberry
Authors: Dang Xiaofei , Zhang Bei , Li Chen , Nagawa Shingo
Published: October 2022

Secondary cell wall thickening plays a crucial role in plant growth and development. Diploid woodland strawberry (Fragaria vesca) is an excellent model for studying fruit development, but its molecular control of secondary wall thickening is largely unknown. Previous studies have shown that Arabidopsis NAC secondary wall thickening promoting factor1 (AtNST1) and related proteins are master regulators of xylem fiber cell differentiation in multiple plant species. In this study, a NST1-like gene, FvNST1b, was isolated and characterized from strawberry. Sequence alignment and phylogenetic analysis showed that the FvNST1b protein contains a highly conserved NAC domain, and it belongs to the same family as AtNST1. Overexpression of FvNST1b in wild-type Arabidopsis caused extreme dwarfism, induced ectopic thickening of secondary walls in various tissues, and upregulated the expression of genes related to secondary cell wall synthesis. In addition, transient overexpression of FvNST1b in wild-type Fragaria vesca fruit produced cells resembling tracheary elements. These results suggest that FvNST1b positively regulates secondary cell wall formation as orthologous genes from other species.
Accurate Chromosome Identification in the Prunus Subgenus Cerasus (Prunus pseudocerasus) and its Relatives by Oligo-FISH
Authors: Wang Lei , Feng Yan , Wang Yan , Zhang Jing , Chen Qing , Liu Zhenshan , Liu Congli , He Wen , Wang Hao , Yang Shaofeng , Zhang Yong , Luo Ya , Tang Haoru , Wang Xiaorong
Published: October 2022

A precise, rapid and straightforward approach to chromosome identification is fundamental for cytogenetics studies. However, the identification of individual chromosomes was not previously possible for Chinese cherry or other Prunus species due to the small size and similar morphology of their chromosomes. To address this issue, we designed a pool of oligonucleotides distributed across specific pseudochromosome regions of Chinese cherry. This oligonucleotide pool was amplified through multiplex PCR with specific internal primers to produce probes that could recognize specific chromosomes. External primers modified with red and green fluorescence tags could produce unique signal barcoding patterns to identify each chromosome concomitantly. The same oligonucleotide pool could also discriminate all chromosomes in other Prunus species. Additionally, the 5S/45S rDNA probes and the oligo pool were applied in two sequential rounds of fluorescence in situ hybridization (FISH) localized to chromosomes and showed different distribution patterns among Prunus species. At the same time, comparative karyotype analysis revealed high conservation among P. pseudocerasus, P. avium, and P. persica. Together, these findings establish this oligonucleotide pool as the most effective tool for chromosome identification and the analysis of genome organization and evolution in the genus Prunus.
Cellular and Biochemical Characterization of Mesenchymal Stem Cells from Killian Nasal Polyp
Authors: Mesuraca Maria , Nisticò Clelia , Lombardo Nicola , Piazzetta Giovanna Lucia , Lobello Nadia , Chiarella Emanuela
Published: October 2022

Killian’s (antrochoanal) polyp is a unilateral nasal polypoid lesion of the maxillary sinus especially affecting children and young adults with unilateral nasal obstruction, pus discharge, and headache. Although its etiology is unclear, chronic inflammation, autoreactivity, allergies, and viral infections are implicated in its formation and development, causing nasal tissue remodeling. In this context, we isolated and cultured mesenchymal stem cells from surgical biopsies of three patients with Killian nasal polyp (KNP-MSCs) while healthy nasal tissue (HNT-MSCs) was used as control. Our results demonstrated that KNP-MSCs exhibited reduced cell proliferation compared to HNT-MSCs, and migrated less than the control, showing a partial epithelial phenotype with low mRNA levels of I-CAM and a significant increase of E-cad. Subsequently, both MSCs were induced to osteoblastic or adipocyte differentiation for up to 20 days. KNP-MSCs underwent to differentiate into osteoblasts but exhibited reduced ALP activity and calcium deposits and low mRNA levels of osteogenesis-associated genes compared to osteogenic induced-HNT-MSCs. Conversely, KNP-MSCs and HNT-MSCs have shown the same adipogenic differentiation potential, with a similar lipid droplet amount, adipocyte gene expression, and triacylglycerols content. Taken together, these results first demonstrated the cellular and molecular characterization of MSCs derived from the Killian nasal polyp.
Identification, Classification and Characterization of LBD Transcription Factor Family Genes in Pinus massoniana
Authors: Zhang Chi , Zhu Peihuang , Zhang Mengyang , Huang Zichen , Hippolyte Agassin Romaric , Hou Yangqing , Lou Xuan , Ji Kongshu
Published: October 2022

Transcription factors (TFs) are a class of proteins that play an important regulatory role in controlling the expression of plant target genes by interacting with downstream regulatory genes. The lateral organ boundary (LOB) structural domain (LBD) genes are a family of genes encoding plant-specific transcription factors that play important roles in regulating plant growth and development, nutrient metabolism, and environmental stresses. However, the LBD gene family has not been systematically identified in Pinus massoniana, one of the most important conifers in southern China. Therefore, in this study, we combined cell biology and bioinformatics approaches to identify the LBD gene family of P. massoniana by systematic gene structure and functional evolutionary analysis. We obtained 47 LBD gene family members, and all PmLBD members can be divided into two subfamilies, (Class I and Class II). By treating the plants with abiotic stress and growth hormone, etc., under qPCR-based analysis, we found that the expression of PmLBD genes was regulated by growth hormone and abiotic stress treatments, and thus this gene family in growth and development may be actively involved in plant growth and development and responses to adversity stress, etc. By subcellular localization analysis, PmLBD is a nuclear protein, and two of the genes, PmLBD44 and PmLBD45, were selected for functional characterization; secondly, yeast self-activation analysis showed that PmLBD44, PmLBD45, PmLBD46 and PmLBD47 had no self-activating activity. This study lays the foundation for an in-depth study of the role of the LBD gene family in other physiological activities of P. massoniana.
What Are the Reasons for Continuing Failures in Cancer Therapy? Are Misleading/Inappropriate Preclinical Assays to Be Blamed? Might Some Modern Therapies Cause More Harm than Benefit?
Authors: Mirzayans Razmik , Murray David
Published: October 2022

Over 50 years of cancer research has resulted in the generation of massive amounts of information, but relatively little progress has been made in the treatment of patients with solid tumors, except for extending their survival for a few months at best. Here, we will briefly discuss some of the reasons for this failure, focusing on the limitations and sometimes misunderstanding of the clinical relevance of preclinical assays that are widely used to identify novel anticancer drugs and treatment strategies (e.g., “synthetic lethality”). These include colony formation, apoptosis (e.g., caspase-3 activation), immunoblotting, and high-content multiwell plate cell-based assays, as well as tumor growth studies in animal models. A major limitation is that such assays are rarely designed to recapitulate the tumor repopulating properties associated with therapy-induced cancer cell dormancy (durable proliferation arrest) reflecting, for example, premature senescence, polyploidy and/or multinucleation. Furthermore, pro-survival properties of apoptotic cancer cells through phoenix rising, failed apoptosis, and/or anastasis (return from the brink of death), as well as cancer immunoediting and the impact of therapeutic agents on interactions between cancer and immune cells are often overlooked in preclinical studies. A brief review of the history of cancer research makes one wonder if modern strategies for treating patients with solid tumors may sometimes cause more harm than benefit.
Comparative Study of the Solid-Liquid Interfacial Adsorption of Proteins in Their Native and Amyloid Forms
Authors: Ábrahám Ágnes , Massignan Flavio , Gyulai Gergő , Katona Miklós , Taricska Nóra , Kiss Éva
Published: October 2022

The adhesive properties of amyloid fibers are thought to play a crucial role in various negative and positive aggregation processes, the study of which might help in their understanding and control. Amyloids have been prepared from two proteins, lysozyme and β-lactoglobulin, as well as an Exendin-4 derivative miniprotein (E5). Thermal treatment was applied to form amyloids and their structure was verified by thioflavin T (ThT), 8-Anilino-1-naphthalenesulfonic acid (ANS) dye tests and electronic circular dichroism spectroscopy (ECD). Adsorption properties of the native and amyloid forms of the three proteins were investigated and compared using the mass-sensitive quartz crystal microbalance (QCM) technique. Due to the possible electrostatic and hydrophobic interactions, similar adsorbed amounts were found for the native or amyloid forms, while the structures of the adsorbed layers differed significantly. Native proteins formed smooth and dense adsorption layers. On the contrary, a viscoelastic, highly loose layer was formed in the presence of the amyloid forms, shown by increased motional resistance values determined by the QCM technique and also indicated by atomic force microscopy (AFM) and wettability measurements. The elongated structure and increased hydrophobicity of amyloids might contribute to this kind of aggregation.
Microarray Profiling of Vaccination-Induced Antibody Responses to SARS-CoV-2 Variants of Interest and Concern
Authors: Svetlova Julia , Gustin Dmitry , Manuvera Valentin , Shirokov Dmitriy , Shokina Varvara , Prusakov Kirill , Aldarov Konstantin , Kharlampieva Daria , Matyushkina Daria , Bespyatykh Julia , Varizhuk Anna , Lazarev Vassili , Vedekhina Tatiana
Published: October 2022

Mutations in surface proteins enable emerging variants of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) to escape a substantial fraction of neutralizing antibodies and may thus weaken vaccine-driven immunity. To compare available vaccines and justify revaccination, rapid evaluation of antibody (Ab) responses to currently circulating SARS-CoV-2 variants of interest (VOI) and concern (VOC) is needed. Here, we developed a multiplex protein microarray-based system for rapid profiling of anti-SARS-CoV-2 Ab levels in human sera. The microarray system was validated using sera samples from SARS-CoV-2-free donors and those diagnosed with COVID-19 based on PCR and enzyme immunoassays. Microarray-based profiling of vaccinated donors revealed a substantial difference in anti-VOC Ab levels elicited by the replication-deficient adenovirus vector-base (Sputnik V) and whole-virion (CoviVac Russia COVID-19) vaccines. Whole-virion vaccine-induced Abs showed minor but statistically significant cross-reactivity with the human blood coagulation factor 1 (fibrinogen) and thrombin. However, their effects on blood clotting were negligible, according to thrombin time tests, providing evidence against the concept of pronounced cross-reactivity-related side effects of the vaccine. Importantly, all samples were collected in the pre-Omicron period but showed noticeable responses to the receptor-binding domain (RBD) of the Omicron spike protein. Thus, using the new express Ab-profiling system, we confirmed the inter-variant cross-reactivity of the anti-SARS-CoV-2 Abs and demonstrated the relative potency of the vaccines against new VOCs.
Recent Advances in Endocannabinoid System Targeting for Improved Specificity: Strategic Approaches to Targeted Drug Delivery
Authors: Dasram Mendhi Henna , Walker Roderick B. , Khamanga Sandile M.
Published: October 2022

Opportunities for developing innovative and intelligent drug delivery technologies by targeting the endocannabinoid system are becoming more apparent. This review provides an overview of strategies to develop targeted drug delivery using the endocannabinoid system (ECS). Recent advances in endocannabinoid system targeting showcase enhanced pharmaceutical therapy specificity while minimizing undesirable side effects and overcoming formulation challenges associated with cannabinoids. This review identifies advances in targeted drug delivery technologies that may permit access to the full pharmacotherapeutic potential of the ECS. The design of optimized nanocarriers that target specific tissues can be improved by understanding the nature of the signaling pathways, distribution in the mammalian body, receptor structure, and enzymatic degradation of the ECS. A closer look at ligand-receptor complexes, endocannabinoid tone, tissue distribution, and G-protein activity leads to a better understanding of the potential of the ECS toolkit for therapeutics. The signal transduction pathways examine the modulation of downstream effector proteins, desensitization, signaling cascades, and biased signaling. An in-depth and overall view of the targeted system is achieved through homology modeling where mutagenesis and ligand binding examine the binding site and allow sequence analysis and the formation of libraries for molecular docking and molecular dynamic simulations. Internalization routes exploring receptor-mediated endocytosis and lipid rafts are also considered for explicit signaling. Furthermore, the review highlights nanotechnology and surface modification aspects as a possible future approach for specific targeting.
A Novel RHS1 Locus in Rice Attributes Seed-Pod Shattering by the Regulation of Endogenous S-Nitrosothiols
Authors: Mun Bong-Gyu , Shahid Muhammad , Lee Gang Sub , Hussain Adil , Yun Byung-Wook
Published: October 2022

Seed or pod shattering in rice (Oryza sativa) is considered to be one of the major factors involved in the domestication of rice as a crop. High seed shattering results in significant yield losses. In this study, we characterize the RICEHIGHSHATTERING 1 (RHS1) that corresponds to the locus LOC_Os04g41250 from a greenhouse screen, involving 145 Ac/Ds transposon mutant rice lines. The knockout mutant line rhs1 exhibited a significantly high shattering of grains in comparison to the wild-type plants. The exogenous application of nitric oxide (NO) resulted in a significant reduction in the expression of RHS1 in wild-type rice plants. The absence of RHS1, which encodes a putative armadillo/beta-catenin repeat family protein, resulted in high sensitivity of the rhs1 plants to nitrosative stress. Interestingly, the basal expression levels of QSH1 and SHAT1 genes (transcription factors that regulate seed-pod shattering in rice) were significantly lower in these plants than in wild-type plants; however, nitrosative stress negatively regulated the expression of QSH1 and SHAT1 in both WT and rhs1 plants, but positively regulated QSH4 expression in rhs1 plants alone. The expression levels of genes responsible for NO production (OsNIA1, OsNIA2, and OsNOA1) were lower in rhs1 plants than in WT plants under normal conditions. However, under nitrosative stress, the expression of OsNIA2 significantly increased in rhs1 plants. The expression of CPL1 (a negative regulator of seed shattering in rice) was significantly lower in rhs1 plants, and we found that CPL1 expression was correlated with S-nitrosothiol (SNO) alteration in rhs1. Interestingly noe1, a rice mutant with high SNO levels, exhibited low seed shattering, whereas rhs1 resulted in low SNO levels with high seed shattering. Therefore, RHS1 is a novel gene that negatively regulates the shattering trait in rice via regulation of endogenous SNO levels. However, the molecular mechanisms involved in the control of RHS1-mediated regulation of seed shattering and its interaction with nitric oxide and involvement in plant defense need to be investigated further.
Increased Weight Gain and Insulin Resistance in HF-Fed PLTP Deficient Mice Is Related to Altered Inflammatory Response and Plasma Transport of Gut-Derived LPS
Authors: Lebrun Lorène J. , Pallot Gaëtan , Nguyen Maxime , Tavernier Annabelle , Dusuel Alois , Pilot Thomas , Deckert Valérie , Dugail Isabelle , Le Guern Naig , Pais De Barros Jean-Paul , Benkhaled Anissa , Choubley Hélène , Lagrost Laurent , Masson David , Gautier Thomas , Grober Jacques
Published: October 2022

Bacterial lipopolysaccharides (LPS, endotoxins) are found in high amounts in the gut lumen. LPS can cross the gut barrier and pass into the blood (endotoxemia), leading to low-grade inflammation, a common scheme in metabolic diseases. Phospholipid transfer protein (PLTP) can transfer circulating LPS to plasma lipoproteins, thereby promoting its detoxification. However, the impact of PLTP on the metabolic fate and biological effects of gut-derived LPS is unknown. This study aimed to investigate the influence of PLTP on low-grade inflammation, obesity and insulin resistance in relationship with LPS intestinal translocation and metabolic endotoxemia. Wild-type (WT) mice were compared with Pltp-deficient mice (Pltp-KO) after a 4-month high-fat (HF) diet or oral administration of labeled LPS. On a HF diet, Pltp-KO mice showed increased weight gain, adiposity, insulin resistance, lipid abnormalities and inflammation, together with a higher exposure to endotoxemia compared to WT mice. After oral administration of LPS, PLTP deficiency led to increased intestinal translocation and decreased association of LPS to lipoproteins, together with an altered catabolism of triglyceride-rich lipoproteins (TRL). Our results show that PLTP, by modulating the intestinal translocation of LPS and plasma processing of TRL-bound LPS, has a major impact on low-grade inflammation and the onset of diet-induced metabolic disorders.
Convolutional Neural Network Model Based on 2D Fingerprint for Bioactivity Prediction
Authors: Hentabli Hamza , Bengherbia Billel , Saeed Faisal , Salim Naomie , Nafea Ibtehal , Toubal Abdelmoughni , Nasser Maged
Published: October 2022

Determining and modeling the possible behaviour and actions of molecules requires investigating the basic structural features and physicochemical properties that determine their behaviour during chemical, physical, biological, and environmental processes. Computational approaches such as machine learning methods are alternatives to predicting the physiochemical properties of molecules based on their structures. However, the limited accuracy and high error rates of such predictions restrict their use. In this paper, a novel technique based on a deep learning convolutional neural network (CNN) for the prediction of chemical compounds’ bioactivity is proposed and developed. The molecules are represented in the new matrix format Mol2mat, a molecular matrix representation adapted from the well-known 2D-fingerprint descriptors. To evaluate the performance of the proposed methods, a series of experiments were conducted using two standard datasets, namely the MDL Drug Data Report (MDDR) and Sutherland, datasets comprising 10 homogeneous and 14 heterogeneous activity classes. After analysing the eight fingerprints, all the probable combinations were investigated using the five best descriptors. The results showed that a combination of three fingerprints, ECFP4, EPFP4, and ECFC4, along with a CNN activity prediction process, achieved the highest performance of 98% AUC when compared to the state-of-the-art ML algorithms NaiveB, LSVM, and RBFN.
On Using the Allium Test for Waterbody Biomonitoring in the Murmansk Region
Authors: Smirnova Maria V. , Denisov Dmitry B.
Published: October 2022

Having started in the 1930-40s, the industrial development of the Kola North has caused elevated environmental pollution of the area’s water bodies. The pollutants contained in dust emissions, dissolved substances and waste waters require their genotoxicity to be estimated using in vivo assays. This article addresses the effect of pollutants entering the water bodies of the Murmansk region together with mining waste, which leads to a decrease in mitotic activity and an increase in chromosomal abnormalities in the roots of Allium cepa L. The evaluated waters showed an effect of reducing the mitotic index and the appearance of chromosomal aberrations; this may be associated with the presence of compounds in the water, such as mining waste.
Analysis of the Impact of Age, Education and Gender on Individuals’ Perception of Label Efficacy for Online Content
Authors: Spradling Matthew , Straub Jeremy
Published: October 2022

Online content is consumed by most Americans and is a primary source of their news information. It impacts millions’ perception of the world around them. Problematically, individuals who seek to deceive or manipulate the public can use targeted online content to do so and this content is readily consumed and believed by many. The use of labeling as a way to alert consumers of potential deceptive content has been proposed. This paper looks at factors which impact its perceived trustworthiness and, thus, potential use by Americans and analyzes these factors based on age, education level and gender. This analysis shows that, while labeling and all label types enjoy broad support, the level of support and uncertainty about labeling varies by age and education level with different labels outperforming for given age and education levels. Gender, alternately, was not shown to have a tremendous impact on respondents’ perspectives regarding labeling; however, females where shown to support labeling more, on average, but also report more uncertainty.
Fuzzy Keyword Searchable Encryption Scheme Based on Blockchain
Authors: Jiang Yongbo , Lu Juncheng , Feng Tao
Published: October 2022

Searchable encryption is a keyword-based ciphertext retrieval scheme, which can selectively retrieve encrypted documents on encrypted cloud data. Most existing searchable encryption schemes focus only on exact keyword searches and cannot return data of interest in fuzzy search. In addition, during the searchable encryption, the cloud server may return invalid results to the data user to save computing costs or for other reasons. At the same time, the user may refuse to pay the service fee after receiving the correct result. To solve the above problems, this paper proposes a fuzzy keyword searchable encryption scheme based on blockchain, which uses edit distance to generate fuzzy keyword sets and generates a secure index with verification tags for each fuzzy keyword set to verify the authenticity of the returned results. The penalty mechanism is introduced through the blockchain to realize the fairness of service payment between users and cloud servers. Security analysis shows that the scheme achieves non-adaptive semantic security. Performance analysis and functional comparison show that the scheme is effective and can meet the requirements of searching applications in the cloud environment.
Breast Cancer Tumor Classification Using a Bag of Deep Multi-Resolution Convolutional Features
Authors: Clement David , Agu Emmanuel , Obayemi John , Adeshina Steve , Soboyejo Wole
Published: October 2022

Breast cancer accounts for 30% of all female cancers. Accurately distinguishing dangerous malignant tumors from benign harmless ones is key to ensuring patients receive lifesaving treatments on time. However, as doctors currently do not identify 10% to 30% of breast cancers during regular assessment, automated methods to detect malignant tumors are desirable. Although several computerized methods for breast cancer classification have been proposed, convolutional neural networks (CNNs) have demonstrably outperformed other approaches. In this paper, we propose an automated method for the binary classification of breast cancer tumors as either malignant or benign that utilizes a bag of deep multi-resolution convolutional features (BoDMCF) extracted from histopathological images at four resolutions (40×, 100×, 200× and 400×) by three pre-trained state-of-the-art deep CNN models: ResNet-50, EfficientNetb0, and Inception-v3. The BoDMCF extracted by the pre-trained CNNs were pooled using global average pooling and classified using the support vector machine (SVM) classifier. While some prior work has utilized CNNs for breast cancer classification, they did not explore using CNNs to extract and pool a bag of deep multi-resolution features. Other prior work utilized CNNs for deep multi-resolution feature extraction from chest X-ray radiographs to detect other conditions such as pneumoconiosis but not for breast cancer detection from histopathological images. In rigorous evaluation experiments, our deep BoDMCF feature approach with global pooling achieved an average accuracy of 99.92%, sensitivity of 0.9987, specificity (or recall) of 0.9797, positive prediction value (PPV) or precision of 0.99870, F1-Score of 0.9987, MCC of 0.9980, Kappa of 0.8368, and AUC of 0.9990 on the publicly available BreaKHis breast cancer image dataset. The proposed approach outperforms the prior state of the art for histopathological breast cancer classification as well as a comprehensive set of CNN baselines, including ResNet18, InceptionV3, DenseNet201, EfficientNetb0, SqueezeNet, and ShuffleNet, when classifying images at any individual resolutions (40×, 100×, 200× or 400×) or when SVM is used to classify a BoDMCF extracted using any single pre-trained CNN model. We also demonstrate through a carefully constructed set of experiments that each component of our approach contributes non-trivially to its superior performance including transfer learning (pre-training and fine-tuning), deep feature extraction at multiple resolutions, global pooling of deep multiresolution features into a powerful BoDMCF representation, and classification using SVM.
Theoretical Insight into B–C Chemical Bonding in Closo-Borate [BnHn−1CH3]2− (n = 6, 10, 12) and Monocarborane [CBnHnCH3]− (n = 5, 9, 11) Anions
Authors: Klyukin Ilya N. , Kolbunova Anastasia V. , Novikov Alexander S. , Zhdanov Andrey P. , Zhizhin Konstantin Yu. , Kuznetsov Nikolay T.
Published: October 2022

A theoretical investigation of mono-methyl derivatives of closo-borate anions of the general form [BnHnCH3]2– (n = 6, 10, 12) and monocarboranes [HCBnHnCH3]− (n = 5, 9, 11) was carried out. An analysis of the main bonding descriptors of exo-polyhedral B–C bonds was performed using the QTAIM (quantum theory of “Atoms in Molecules”), ELF (electron localisation function), NBOs (natural bond orbitals) analyses and several other approaches for the estimation of B–C bond orders (viz. Laplacian bond order (LBO), fuzzy bond order (FBO) and Mayer and Wiberg formalisms). Based on the data obtained on electron density descriptors, it can be concluded that orbital interaction increases with increasing boron cluster size. The present investigation provides a better understanding of exo-polyhedral B–C bond phenomena in boron cluster systems. The data obtained can be used to estimate B–C bond strength, which can be useful for studies devoted to the synthesis and properties of boron cluster systems.
Cobalt-Based Perovskite Electrodes for Solid Oxide Electrolysis Cells
Authors: Zhang Chi , Lu Bin , Xiong Haiji , Lin Chengjun , Fang Lin , Fu Jile , Deng Dingrong , Fan Xiaohong , Li Yi , Wu Qi-Hui
Published: October 2022

Recently, many efforts and much attention has been paid to developing environmentally friendly energy. Solid oxide electrolyte cells (SOECs) process in reverse to solid oxide fuel cells (SOFCs) producing hydrogen gas as a green energy source. However, in this application, high-performance catalysts are usually required to overcome the sluggish oxygen evolution reactions (OER) during water decomposition. For this reason, discovery of catalysts with high performance is a crucial issue for the wide application of SOECs. Owning to their inherent activity and adequate stability in electrochemical conditions, perovskite oxides have been intensively employed in SOECs. In this mini review, we summarize the currently available studies concerning the applications of cobalt-based perovskite oxide catalysts in SOECs. Particularly, their structural properties and corresponding electronic structures are discussed based on their electrochemical performance, both experimentally and theoretically.
Rational Design of Fluorescent/Colorimetric Chemosensors for Detecting Transition Metal Ions by Varying Functional Groups
Authors: Park Jong-Kwon , Shin Junhyeop , Jang Seohyeon , Seol Myeong-Lok , Kang Jihyeon , Choi Seyoung , Eom Hojong , Kwon Ohhyun , Park Soomin , Noh Dong-Youn , Nam Inho
Published: October 2022

In recent decades, concerns about increasing biological and environmental contamination have necessitated the development of chemosensors with high selectivity, sensitivity, and cost-effectiveness. In principle, the sensing performance can be affected by the functional group(s) of receptor, the charge of the metal ion(s), and the electron configuration of the sensing molecule(s)e and metal ion(s). Fine controlling of the substituents can influence the electron density of the receptor to enhance the binding affinity to metal ions, which is an effective way to improve the photophysical properties of the sensors. This review explores the effect of functional group modification on the performance of various chemosensors represented by Pt(dithiolene)-based complexes (2012–2021). Then, recently developed Schiff base chemosensors (2014–2021) are discussed. The Schiff base is a good platform for controlling electron configuration due to a facile synthesis of various organic structures (aldehyde or ketone groups with primary amine derivatives). The discussion focuses on the detection type, physicochemical and optical properties, and applications of these chemosensors.
Technoeconomic Analysis of Dye Sensitized Solar Cells (DSSCs) with WS2/Carbon Composite as Counter Electrode Material
Authors: Syed Tajamul Hussain , Wei Wei
Published: October 2022

Exploration of clean and renewable energy materials is necessary due to the coming energy crisis and environmental problems. Solar energy is one of the favorable energy sources because of the continuous energy reservoir and its affluence. Silicon-based solar devices are expensive due to their complicated production process, which limits this technology for urban and other commercial applications. Among the third generation of solar cells, Dye-Sensitized Solar Cells (DSSCs) have attracted widespread attention as potential cost-effective alternatives to silicon-based solar cells. In this paper, the commercializing potential of the DSSCs is investigated. A module is introduced where the materials, equipment, and distribution of direct manufacturing costs are calculated. The manufacturing costs and the Levelized Cost of Energy (LCOE) of these DSSCs for a system lifetime of 25 years were determined to be USD 22.40 per m2 and USD 0.0438 per kWh and the module price of this technology is USD 0.18 per W and the total installed system cost is USD 0.88 per W in Kansas which suggest that this PV technology could challenge other leading PV technologies.
Molecular Detection of Pentastiridius leporinus, the Main Vector of the Syndrome ‘Basses Richesses’ in Sugar Beet
Authors: Pfitzer René , Varrelmann Mark , Hesse Georgia , Eini Omid
Published: October 2022

Monitoring of Pentastiridius leporinus (Hemiptera: Auchenorrhyncha: Cixiidae), representing the main vector of the syndrome ‘basses richesses’ (SBR) disease in sugar beet is based on morphological identification. However, two other cixiid species, Reptalus quinquecostatus and Hyalesthes obsoletus with similar external characters are known to appear in sugar beet fields and are challenging to be distinguished from P. leporinus. We present a PCR-based method for species-specific detection of both male and female P. leporinus, directly after sweep net collection or after up to 18 months long term storage on sticky traps. Two methods of DNA template preparation, based on a commercial extraction kit or on simple grinding in phosphate-buffered saline (PBS) were compared. The latter method was also established for eggs and all five nymphal instars of P. leporinus from a rearing. Furthermore, in silico primer analysis showed that all Auchenorrhyncha species including far related species reported from sugar beet fields can be differentiated from P. leporinus. This was PCR-confirmed for the most common Auchenorrhyncha species from different German sugar beet fields. Sequence analysis of the P. leporinus mitochondrial cytochrome oxidase I gene (COI) amplicon showed a close relationship to COI from P. beieri but separated from the Reptalus and Hyalesthes species which are grouped into the same family Cixiidae. We present a sensitive, cost- and time-saving PCR-based method for reliable and specific detection of eggs and all nymphal instars, as well as male and female P. leporinus, after different methods of planthopper collection and template DNA template preparation that can be used in large scale monitoring assays.
The Efficacy of Yeast Phagostimulant Baits in Attract-and-Kill Strategies Varies between Summer- and Winter-Morphs of Drosophila suzukii
Authors: Jones Rory , Eady Paul E. , Goddard Matthew R. , Fountain Michelle T.
Published: October 2022

Drosophila suzukii (Matsumura), is a globally invasive pest of soft and stone fruit. To survive winter in temperate zones it enters a reproductive diapause in a morphologically distinct phenotype. Phagostimulant baits can be combined with insecticides in attract-and-kill strategies for control. We investigated the effectiveness of single yeast species and combinations of co-fermented yeast phagostimulant baits when combined with insecticides in laboratory assays against both summer- and winter-morph D. suzukii. Candida zemplininia or Hanseniaspora uvarum + C. zemplininia combined with lambda-cyhalothrin or cyantraniliprole, and H. uvarum combined with cyantraniliprole caused significantly higher mortality in winter- compared to summer-morph D. suzukii. Additionally, lambda-cyhalothrin combined with M. pulcherrima + H. uvarum resulted in greater mortality compared to single yeasts, H. uvarum for both summer- and winter-morphs and C. zemplininia for summer-morphs. M. pulcherrima + H. uvarum with spinosad significantly reduced the time-to-kill (50%) of summer-morphs compared to insecticide alone. Most yeast-based baits were comparable in terms of attract-and-kill efficacy to Combi-protec, a commercially available bait, although M. pulcherrima or H. uvarum + C. zemplininia in with cyantraniliprole were less effective. Our study suggests that yeast phagostimulants in attract-and-kill strategies should be adjusted for summer- and winter-morph D. suzukii for more effective control.
Inheritance and Biological Characterization of an Orange-nymph Mutant in Orius laevigatus (Hemiptera: Anthocoridae)
Authors: Rodríguez-Gómez Amador , Donate Alberto , Sánchez-Martínez Isabel , Balanza Virginia , Abelaira Ana Belén , Reche María del Carmen , Bielza Pablo
Published: October 2022

A mutation showing a distinct orange color in the nymph stages was found in Orius laevigatus (Fieber) (Hemiptera: Anthocoridae), a key biological control agent in protected crops, used to control small pests, especially thrips. A laboratory strain carrying this body color mutation ambar was established. Genetic analysis determined that the mutation (ambar) was controlled by a single autosomal recessive allele. Some biological and ecological characteristics of this orange strain were compared to a normal population. Longevity, fecundity and fertility were similar in both populations, but immature survival, development rate, body size, starvation tolerance and predation capacity were inferior in the orange strain. The utility of the orange mutant as a visible marker for biological and ecological studies of this important biological control agent is discussed.
Behavioral Fingerprinting: Acceleration Sensors for Identifying Changes in Livestock Health
Authors: Fan Bowen , Bryant Racheal , Greer Andrew
Published: October 2022

During disease or toxin challenges, the behavioral activities of grazing animals alter in response to adverse situations, potentially providing an indicator of their welfare status. Behavioral changes such as feeding behavior, rumination and physical behavior as well as expressive behavior, can serve as indicators of animal health and welfare. Sometimes behavioral changes are subtle and occur gradually, often missed by infrequent visual monitoring until the condition becomes acute. There is growing popularity in the use of sensors for monitoring animal health. Acceleration sensors have been designed to attach to ears, jaws, noses, collars and legs to detect the behavioral changes of cattle and sheep. So far, some automated acceleration sensors with high accuracies have been found to have the capacity to remotely monitor the behavioral patterns of cattle and sheep. These acceleration sensors have the potential to identify behavioral patterns of farm animals for monitoring changes in behavior which can indicate a deterioration in health. Here, we review the current automated accelerometer systems and the evidence they can detect behavioral patterns of animals for the application of potential directions and future solutions for automatically monitoring and the early detection of health concerns in grazing animals.
The Role of Interior Design in Enhancing Happiness and Comfort at Educational Institutions in Saudi Arabia: A Case Study of Girls’ College of Science and Arts in Mahayel Aseer, at King Khalid University
Authors: Alamry Gidaa
Published: October 2022

The aim of this research was to evaluate how the quality interior design aspects of the staff office spaces at the Girls’ College of Science and Arts, King Khalid University, Saudi Arabia, affect their happiness, comfort and performance of their duties, and also proposes a solution based on the sciences of the relationship between happiness and interior design. The aim was achieved by carrying out a survey on staff of the college. The participants were selected using a combination of probabilistic and random sampling. The research found that a good number of staff at the college are not happy with their work environments. Further analysis indicated that interior design deficiency is a major cause of unhappiness of staff at the college. The results showed that this may be attributed to three important aspects of quality interior space furniture: insufficiency of furniture and other workspace items; lack of aesthetics, functionality, comfort, color and materials (low quality materials) of furniture and other workspace items; and a lack of sufficient natural lighting being another major issue affecting the quality of natural and artificial lighting in some offices at the college. Participants were also not comfortable with some materials used in the interior space. The study recommends that office spaces should be redesigned to meet the following interior design criteria: appropriateness for the workplace (size, lighting and materials); color and decorations (non-dark colors); and appropriate accessories and tools of work.
Genetic Profile and Clinical Characteristics of Brugada Syndrome in the Chinese Population
Authors: Wang Lin-Lin , Chen Yang-Hui , Sun Yang , Huang Man , Wei Hao-Ran , Liu Hao , Xu Ke , Song Xiu-Li , Chen Peng , Tan Lun , Huang Jin , Li Zong-Zhe , Li Rui , Yu Ting , Ma Fei , Ding Hu , Wang Yan , Wang Dao-Wen , Wang Hong , Zhao Chun-Xia
Published: October 2022

Background: Brugada syndrome (BrS) is an inheritable arrhythmia syndrome that can lead to sudden cardiac death in patients while the heart structure is normal. However, the genetic background of more than 65% of BrS probands remains unclear. Objectives: The purpose of this study is to report the variant spectrum in a Chinese cohort with suspected BrS and to analyze their distinct clinical and electrocardiographic features. Methods: Patients with suspected BrS from Tongji Hospital between 2008 and 2021 were analyzed retrospectively. Results: A total of 79 probands were included in this study. Patients with type 1 BrS electrocardiogram (ECG) had a prolonged QRS duration compared to patients with type 2/3 BrS ECG. Of them, 59 probands underwent genetic testing. Twenty-five patients (42.37%) showed abnormal genetic testing results, and eight of them (13.56%) carried pathogenic/likely pathogenic (P/LP) mutations. Mutation carriers presented much more prominent depolarization and repolarization abnormalities than non-carriers, including a prolonged P-wave duration, QRS duration, QTc interval, decreased QRS amplitude, and deviation of the electrocardiographic axes (T-wave axis and R-wave axis). Furthermore, our study identified four novel P/LP mutations: Q3508X in TTN, A990G in KCNH2, G1220E, and D372H (in a representative pedigree) in SCN5A. Conclusions: Our study showed the variant spectrum of a suspected Chinese BrS cohort, and we identified four novel P/LP mutations in TTN, KCNH2, and SCN5A.
Self-Medication for the Treatment of Abdominal Cramps and Pain—A Real-Life Comparison of Three Frequently Used Preparations
Authors: Storr Martin , Weigmann Harald , Landes Sabine , Michel Martin C.
Published: October 2022

Functional gastrointestinal disorders (FGIDs), including irritable bowel syndrome (IBS), are frequently handled by self-management with over-the-counter (OTC) products such as hyoscine butylbromide (HBB), alone or in combination with paracetamol, and natural products such as peppermint oil. To obtain real-world information, we have performed an anonymous pharmacy-based patient survey among 1686 users of HBB, HBB + paracetamol, and peppermint oil. Based on the distinct but overlapping indications for the three OTC products, multiple logistic regression was applied to compare them in users reporting gastrointestinal cramps and pain, bloating, flatulence, or IBS as cardinal symptoms. All three treatments reduced symptoms and associated impairments of work/daily chores, leisure activities, and sleep by approximately 50%. Based on the four cardinal symptoms and the four dependent continuous variables of interest (change in intensity of symptoms and of the three impairment domains) a total of 16 logistic regression models were applied. HBB, HBB + paracetamol, and peppermint oil had similar reported overall effectiveness in those models. Gender, age, baseline symptom severity, and impairment in one of three domains had small and inconsistent effects on perceived treatment success. We provide evidence that HBB, HBB + paracetamol, and peppermint oil have comparable effectiveness in their approved indications under real-world conditions in an OTC setting.