bluuebunny/crossref_metadata_2025_split huggingface dataset:
IdentPMP: identification of moonlighting proteins in plants using sequence-based learning models
Authors: Liu Xinyi , Shen Yueyue , Zhang Youhua , Liu Fei , Ma Zhiyu , Yue Zhenyu , Yue Yi 
Published: August 2021

Background
A moonlighting protein refers to a protein that can perform two or more functions. Since the current moonlighting protein prediction tools mainly focus on the proteins in animals and microorganisms, and there are differences in the cells and proteins between animals and plants, these may cause the existing tools to predict plant moonlighting proteins inaccurately. Hence, the availability of a benchmark data set and a prediction tool specific for plant moonlighting protein are necessary.

Methods
This study used some protein feature classes from the data set constructed in house to develop a web-based prediction tool. In the beginning, we built a data set about plant protein and reduced redundant sequences. We then performed feature selection, feature normalization and feature dimensionality reduction on the training data. Next, machine learning methods for preliminary modeling were used to select feature classes that performed best in plant moonlighting protein prediction. This selected feature was incorporated into the final plant protein prediction tool. After that, we compared five machine learning methods and used grid searching to optimize parameters, and the most suitable method was chosen as the final model.

Results
The prediction results indicated that the eXtreme Gradient Boosting (XGBoost) performed best, which was used as the algorithm to construct the prediction tool, called IdentPMP (Identification of Plant Moonlighting Proteins). The results of the independent test set shows that the area under the precision-recall curve (AUPRC) and the area under the receiver operating characteristic curve (AUC) of IdentPMP is 0.43 and 0.68, which are 19.44% (0.43 vs. 0.36) and 13.33% (0.68 vs. 0.60) higher than state-of-the-art non-plant specific methods, respectively. This further demonstrated that a benchmark data set and a plant-specific prediction tool was required for plant moonlighting protein studies. Finally, we implemented the tool into a web version, and users can use it freely through the URL: http://identpmp.aielab.net/.
Establishment of a ferroptosis-related gene signature for prognosis in lung adenocarcinoma patients
Authors: Cai Jingjing , Li Chunyan , Li Hongsheng , Wang Xiaoxiong , Zhou Yongchun 
Published: August 2021

Objective
Lung cancer is the most common malignancy worldwide and exhibits both high morbidity and mortality. In recent years, scientists have made substantial breakthroughs in the early diagnosis and treatment of lung adenocarcinoma (LUAD), however, patient prognosis still shows vast individual differences. In this study, bioinformatics methods were used to identify and analyze ferroptosis-related genes to establish an effective signature for predicting prognosis in LUAD patients.

Methods
The gene expression profiles of LUAD patients with complete clinical and follow-up information were downloaded from two public databases, univariate Cox regression and multivariate Cox regression analysis were used to obtain ferroptosis-related genes for constructing the prognos tic risk model, AUC and calibration plot were used to evaluate the predictive accuracy of the FRGS and nomogram.

Results
A total of 74 ferroptosis-related differentially expressed genes (DEGs) were identi fied between LUAD and normal tissues from The Cancer Genome Atlas (TCGA) database. A five-gene panel for prediction of LUAD prognosis was established by multivariate regression and was verified using the GSE68465 cohort from the Gene Expression Omnibus (GEO) database. Patients were divided into two different risk groups according to the median risk score of the five genes. Based on Kaplan-Meier (KM) analysi, the OS rate of the high-risk group was markedly worse than that of the low-risk group. We also found that risk score was an independent prognostic indicator. The receiver operating characteristic ROC curve showed that the proposed model had good prediction ability. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) functional analyses indicated that risk score was prominently enriched in ferroptosis processes. Moreover, at the score of immune-associated gene sets, significant differences were found between the two risk groups.

Conclusions
This study demonstrated that ferroptosis-related gene signatures can be used as a potential predictor for the prognosis of LUAD, thus providing a novel strategy for individualized treatment in LUAD patients.
Coronavirus: A Laboratory Perspective
Authors: Jacob Ransom Baribefii , Ifunaya Chukwu Christopher , Roseline Emeji 
Published: August 2021

COVID-19 is a virus of the species of the Family coronaviridae known as as SARS-COV-2. This virus is easily contracted and/transmitted from an infected person to another healthy individual and has continued to spread rapidly. The aim of this review is to identify laboratory methods used in the diagnosis of COVID-19 infection. COVID-19 test are aimed at detecting active infection, or past infection, or an immunization so as to treat and curb the further spread of the virus. The initial viral detection is typically carried out with the upper respiratory tract (URT) sample. Repeated testing is particularly helpful and essential if a patient has a clinical appearance of viral pneumonia, radiographic results consistent with pneumonia and/or a history of potential exposure. The Centre of Disease Control and Prevention, CDC recommends the collection of specimens from the lower respiratory tract, upper respiratory tract, and the blood. The lower respiratory tract sample includes; the sputum, broncheoalveolar lavage, bronchial wash, tracheal aspirate, and pleural fluid. The upper respiratory tract specimens include; the nasopharyngeal swab, and oropharyngeal swab (NP/OP swabs). Some laboratory techniques developed and in use for the detection of Covid-19 are; nucleic acid amplification tests (NAATs), antibody detection, and viral antigen detection. The role of the laboratory assay in diagnosis of COVID-19 infection or disease cannot be under-estimated, timing and site of specimen collected must be followed by adequate professional training to ensure result accuracy. This review provides information on available laboratory techniques for the diagnosis of the viral infection and their potential merits and limitations.
Phenology, Agrometeorological Indices and Yield of Pusa Basmati-1509 as Influenced by Sowing Dates and Nitrogen Levels under Temperate Conditions
Authors: Hussain Ashaq , Mughal Showkat A. , Jehangir Intikhab Aalum , Bhat M. Anwar , Sofi N. R. , Raja Waseem , Teli N. A. , Mahdi S. Sheeraz , Sofi Latief A. 
Published: August 2021

The purpose of the study was to optimize the sowing date and nitrogen level in early maturing rice (Pusa basmati 1509) under temperate climate for realizing higher yield. The experiment was conducted on silty clay loam soil, neutral in reaction, low in available nitrogen, medium in available phosphorus, potassium and organic carbon. Treatments included three sowing dates viz 20th April, 30th April, and 10thMay and five nitrogen levels viz 0, 30, 60, 90 and 120 kg N ha-1 laid out in split plot design with three replications. Among the sowing dates, 20th April took maximum no. days to reach different phenological stages and maturity. The GDD (1431) and HTU (15161 oC d-1 hr-1) requirement to reach maturity was maximum for 20th of April sowing. Significantly higher grain yield, higher HUE (2.90 kg ha-1 oC-1 d-1) and HTUE (0.273 kg ha-1 oC-1 hr-1) was realized form 1st date of sowing i.e., 20th of April. Higher doses of 120 kg N ha-1resulted in slightly more number of days to reach different phenological stages and maturity that was also reflected in higher accumulation of more GDD 1403° and HTU (14987 °C d-1 hr-1) at maturity. Highest HUE (1.42 kg ha-1 oC-1 d-1) and HTUE (0.133 kg ha-1 °C-1 hr-1) was realized at 120 kg N ha-1. Further among the sowing dates, 20th April and 30th April had significantly higher growth parameters viz. plant height, leaf area index, tillers m-2, dry matter accumulation, leaf area index and SPAD reading as compared to 10th May. Most of the growth and yield parameters were found significantly higher at nitrogen level of 120 kg ha-1. However, most of them were at par with followed by nitrogen level of 90 kg ha-1.
Physico-Chemistry of Surface Water Impacted by Crude Oil Spills in Bodo/Bonny Rivers, Nigeria
Authors: Ogbonna David N. , Ngah Sebastine A. , Youdeowei Patrick O. , Origbe Matthew E. 
Published: August 2021

The surface water resources of Bodo/Bonny communities in Rivers State suffers regular pollution of its ecosystem due to increase in crude oil exploration, refining and activities of other industrial establishments operating within the coastal areas of the Ogoniland of the Niger Delta region of Nigeria. This have resulted in the wide scale contamination of most of its creeks, swamps and rivers with hydrocarbons and dispersant products resulting in the alteration of the ecological integrity of fragile aquatic systems, bioaccumulation of chemical contaminants by zoobenthos, sediment enrichment, and smothering or asphyxiation of the organisms in water by oil coating, thereby causing death. These conditions have resulted in serious threat to public health and the ecosystems. The study was aimed at determining the physico-chemical characteristics of Bodo/Bonny coastal waters impacted by crude oil spills and their effect on the marine ecosystems. Surface water was collected from 5 stations (BBW1, BBW2, BBW3, BBW4 and LFPW5) with LFPW5 serving as control. Physico-chemical parameters were investigated following standard methods. The results of the physicochemical characteristics of the various sampling points in the dry season showed that pH, TDS and Electrical conductivity values showed statistically significant differences at P < 0.005. pH was slightly acidic in all sampling locations except for the Link fish pond, the values ranged from 6.20–6.40 which was below DPR Limit of 6.5-8.5 for potable water, TDS recorded 43175–57075 mg/L above DPR permissible Limit of 5000mg/L. Electrical Conductivity (EC) values ranged from 54050 -57050 µS/cm. The Dissolved Oxygen, Biological Oxygen Demand, Turbidity, Chloride recorded in this study varied significantly at P< 0.05. Results of the physicochemical parameters of surface water in the wet season fell within the standard limits except for the conductivity that was above the permissible limits. Comparatively the mean pH value of surface river water with Linked fish pond water which served as the control revealed that the Link fish pond water had the highest pH value of 7.9 than the surface river water samples with a pH of 6.4, TDS (60,200 mg/L), Electrical Conductivity (EC) (µS/cm3) followed a similar pattern with the mean EC value of 55,800 mg/L as against 750mg/L for the Link Fish pond water. Temperature recorded 310C as against 300C for the link fish pond while the Salinity (mg/L) of the surface river water was 31.63 mg/L. Dissolved Oxygen was 2.3 mg/L, Biochemical Oxygen Demand values for the surface river water was 0.49 mg/L while the Link fish pond water had 0.3mg/L. These values obtained in this study shows that the spilled oil in the water could impact on species abundance and biomass by depleting and depriving the fishes from available O2 for survival thus resulting in asphyxiation.
Wastewater Treatment of Wet Coffee Processing in an Anaerobic Sequencing Batch Reactor Pretreated with Electro Coagulation
Authors: Gururaj Asha , Kumar B. Manoj 
Published: August 2021

The interest for improving the quality of coffee production has led to the increased use of wet processing so as to highlight the quality and aroma of the beverage. The coffee pulping process has been causing environmental problems at the local level not only due to the consumption of water, but more due to the discharge of effluents with large volumes of organic waste. The wet processing generates enormous quantity of wastewater which causes irrepairable damage to the receiving water bodies. Indispensable. However, physico chemical treatment method coupled with biological treatment as proved effective treatment mode for safe and proper disposal of the wastewater generated. In this sense, the objective of the present study is to evaluate the efficacy of electrocoagulation batch reactor as pretreatment for anaerobic sequencing batch reactor to treat coffee processing wastewater.
Comparative Study on Efficacy of Murvadya Churna with Lauha Bhasma and Navayas Churna in Pandu Roga (Iron Deficiency Anemia)
Authors: Davkare Manisha Vaman , Deshmukh Sourabh 
Published: August 2021

Pandu Roga is mainly the Rasapradoshaj Vyadhi which vitiates the Pitta. Whereas Shushruta described it as Raktapradoshaj Vyadhi. In Pandu Roga due to Alpa Rakta Twaka Vivarnata (discoloration of skin) occurs.So according to name Panduta is the main feature of Pandu Roga.Due to lack of dietary intake & improper absorption of iron are the causes of Iron deficiency Anemia.
Aim: Efficacy of Murvadya Churna with Lauha Bhasma in the management of Pandu Roga (Iron Deficiency Anemia).
Material and Methods: Study was contained 60 patients of Pandu were divided into two groups (each group contain 30). In Group A (Experimental group)- Murvadya Churna with Lauha Bhasma 500 mg two times a day after meal with warm water for 30 days & In Group B 500 mg Navayas Lauha was administered two times a day after meal with honey. Assessment was recorded every 15th day (15th & 30th day)
Result: Subjective and Objectives outcomes were assessed; both the groups were given equal effects on both the parameters subjective & objective.
Conclusion: Murvadya churna with Lauha Bhasma was equally effective as Navayas Lauha.
A Case Report on Ischemic Dilated Cardiomyopathy with Compensated Alcoholic Liver Disease with Acute Pancreatitis and Right Sided Pleural Effusion
Authors: Jawade Switi 
Published: August 2021

Introduction: Ischemic heart disease is the most common cause of dilated cardiomyopathy. In ischemic heart disease, the capability of the coronary heart to pump blood is reduced due to the fact that the principle pumping chamber of the heart, the left ventricle, is enlarged and dilated. This is due to a loss of blood supply to the heart muscles due to coronary artery disorder. This condition is sometimes referred to as dilated cardiomyopathy.
Clinical Finding: shortness of breath since 3 months, dry cough, loss of appetite, loss of weight (Weight 50 Kg), lower limb swelling, increased frequency of stools since 3 months.
Diagnostic Evaluation: chest x-ray right hydropneumothorax, ECG QS complexes in V1, V2, V3, 2 D Echo ejection fraction 15%, all chambers dilated, poor biventricular systolic function, mild mitral regurgitation, tricuspid regurgitation.
USG for liver mild hepatomegaly, USG for thorax gross pleural effusion on right side,
CECT Abdomen bulky tail of pancreas, right side pleural effusion with collapse of underlying lung.
Therapeutic Intervention: Patient was treated with diuretics, alpha and beta-blocker, angiotensin receptor, Antibiotic, protein powder and supportive treatment and intercostals chest drainage was done.
Outcome: pleural tapping was done. Patient general condition was poor with breathlessness.
Conclusion: This situation indicates the subsequent mental impact at the affected person, as well as on career and family. After getting appropriate treatment patients symptoms relived and the progression of heart failure slowed down.
Are the estrogen receptor and SIRT3 axes of the mitochondrial UPR key regulators of breast cancer subtype determination according to age?
Authors: Jenkins Edmund Charles , Chattopadhyay Mrittika , Germain Doris 
Published: August 2021

AbstractAging is a major risk factor of developing breast cancer. Despite the fact that postmenopausal women have lower levels of estrogen, older women have a higher rate of estrogen receptor alpha (ERα)‐positive breast cancer. Conversely, young women who have elevated levels of estrogen tend to develop ERα‐negative disease that is associated with higher rate of metastasis. This perspective proposes a unifying model centered around the importance of mitochondrial biology in cancer and aging to explain these observations. Mitochondria are essential for the survival of cancer cells and therefore pathways that maintain the functionality of the mitochondrial network in cancer cells fulfill a critical role in the survival of cancer cells. The ERα and the mitochondrial sirtuin‐3 (SIRT3) have been reported to be key players of the mitochondrial unfolded protein response (UPRmt). The UPRmt is a complex retrograde signaling cascade that regulates the communication between the mitochondria and the nucleus to restore mitochondrial fitness in response to oxidative stress. SIRT3 is a major regulator of aging. Its level decreases with age and single‐nucleotide polymorphisms that preserve its expression at higher levels are observed in centenarians. We propose a model whereby the ERα axis of the UPRmt acts to compensate for the loss of SIRT3 observed with age, and becomes the dominant axis of the UPRmt to maintain the integrity of the mitochondria during transformation, thus explaining the selective advantage of ERα‐positive luminal cells in breast cancer arising from older women.
LPNN‐based approach for LASSO problem via a sequence of regularized minimizations
Authors: Zeglaoui Anis , Houmia Anouar , Mejai Maher , Aloui Radhouane 
Published: August 2021

SummaryIn compressive sampling theory, the least absolute shrinkage and selection operator (LASSO) is a representative problem. Nevertheless, the non‐differentiable constraint impedes the use of Lagrange programming neural networks (LPNNs). We present in this article the‐LPNN model, a novel algorithm that tackles the LASSO minimization together with the underlying theory support. First, we design a sequence of smooth constrained optimization problems, by introducing a convenient differentiable approximation to the non‐differentiable‐norm constraint. Next, we prove that the optimal solutions of the regularized intermediate problems converge to the optimal sparse signal for the LASSO. Then, for every regularized problem from the sequence, the‐LPNN dynamic model is derived, and the asymptotic stability of its equilibrium state is established as well. Finally, numerical simulations are carried out to compare the performance of the proposed‐LPNN algorithm with both the LASSO‐LPNN model and a standard digital method.
On key properties of the Lion's and Kreisselmeier's adaptation algorithms
Authors: Gerasimov Dmitry N. , Nikiforov Vladimir O. 
Published: August 2021

SummaryThe article revises properties of two identification/adaptation algorithms proposed by Lion and Kreisselmeier more than 40 years ago to accelerate parametric convergence under regressor persistency of excitation (PE) condition. First, motivated by the paperwe demonstrate that these algorithms can provide asymptotic (not exponential) parametric convergence under a simple condition which is weaker than the requirement of PE. Second, it is shown that for some special choice of adaptation gain the algorithms can provide finite time parametric convergence if the regressor satisfies theinterval excitation(IE) condition that is even weaker than the condition of asymptotic convergence. Third, it is shown that for some certain structural requirements these algorithms can generate the high‐order time derivatives of the adjustable parameters. This property can be used for solution of a wide range of problems of adaptive control including, in particular, model reference adaptive control and modular backstepping design with high‐order tuners.
Highly Salt‐Resistant 3D Hydrogel Evaporator for Continuous Solar Desalination via Localized Crystallization
Authors: Li Lin , He Nan , Jiang Bo , Yu Kewei , Zhang Qian , Zhang Haotian , Tang Dawei , Song Yongchen 
Published: August 2021

AbstractThe emerging solar desalination by interfacial evaporation shows great potential for alleviating the global freshwater crisis. However, salt deposition on the whole evaporation surface during steam generation leads to a deterioration in the evaporation rate and long‐term stability. Herein, it is demonstrated that a hydrogel‐based 3D structure can serve as an efficient and stable solar evaporator by salt localized crystallization for high‐salinity brine desalination. Under the function of micron‐grade brine transport management and edge‐preferential crystallization promoted by this novel design, this 3D hydrogel evaporator exhibits a superior salt‐resistant property without salt deposition on the photothermal surface even in 20 wt% brine for continuous 24‐h illumination. Moreover, by virtue of the synergistic effect of the promising 3D structure and excellent water transport of hydrogel, the proposed evaporator possesses an excellent evaporation performance achieving 2.07 kg m−2 h−1 on average in a high‐salinity brine (from 10 to 25 wt% NaCl) under 1 sun irradiation, among the best values reported in the literature. With stable and efficient evaporation performance out of high‐salinity brine, this design holds great potential for its applications in sustainable solar desalination.
Matrix Manipulation of Directly‐Synthesized PbS Quantum Dot Inks Enabled by Coordination Engineering
Authors: Li Fei , Liu Yang , Shi Guozheng , Chen Wei , Guo Renjun , Liu Dong , Zhang Yaohong , Wang Yongjie , Meng Xing , Zhang Xuliang , Lv You , Deng Wei , Zhang Qing , Shi Yao , Chen Yifan , Wang Kai , Shen Qing , Liu Zeke , Müller‐Buschbaum Peter , Ma Wanli 
Published: August 2021

AbstractThe direct‐synthesis of conductive PbS quantum dot (QD) ink is facile, scalable, and low‐cost, boosting the future commercialization of optoelectronics based on colloidal QDs. However, manipulating the QD matrix structures still is a challenge, which limits the corresponding QD solar cell performance. Here, for the first time a coordination‐engineering strategy to finely adjust the matrix thickness around the QDs is presented, in which halogen salts are introduced into the reaction to convert the excessive insulating lead iodide into soluble iodoplumbate species. As a result, the obtained QD film exhibits shrunk insulating shells, leading to higher charge carrier transport and superior surface passivation compared to the control devices. A significantly improved power‐conversion efficiency from 10.52% to 12.12% can be achieved after the matrix engineering. Therefore, the work shows high significance in promoting the practical application of directly synthesized PbS QD inks in large‐area low‐cost optoelectronic devices.
Droplet Energy Harvesting Is Reverse Phenomenon of Electrowetting on Dielectric
Authors: Kim Gijung , Kim Wonjune , Chun Honggu 
Published: August 2021

AbstractElectric energy is generated when water droplets slide down electrodes coated with a hydrophobic dielectric layer. The principle of energy generation needs to be clarified for the optimization and scalable design of the energy‐harvesting system. In this study, it is shown that droplet energy harvesting is the reverse phenomenon of voltage‐driven droplet actuation or electrowetting‐on‐dielectric (EWOD). For this reverse EWOD, the interfacial energy difference generated between the three‐phase contact line of the advancing and receding part of the droplet is the cause of the generation of electric energy. To prove the effect of interfacial energy on energy harvesting, the wetting property of the dielectric layer is controlled by nanopatterning while maintaining the chemical properties. The width and gap of the electrodes and the droplet size determine whether the harvested voltage waveform is monophasic or biphasic. The energy conversion efficiency is determined by the wetting properties of the surface, and the maximum value is as high as 40%.