Bioinformatics Analysis of the Association between Ewing’s Sarcoma and Tuberculosis Comorbidity

Objective To screen and analyze the differentially expressed genes of Ewing’s sarcoma (ES) and Tuberculosis (TB) by bioinformatics. Methods GEO gene chip public database in NCBI was used for data retrieval, and chip data GSE17674 and GSE57736 were selected as analysis objects. The R language limma toolkit was used to screen DEmRNAs, and the data were standardized, and the common differentially expressed genes were screened by Venn diagram. The GO function and KEGG pathway enrichment of common differentially expressed genes were analyzed by using the R cluster Profiler package. String database was selected for PPI analysis, and the results were imported into Cytoscape software to obtain PPI interaction map, core module and Hub gene. Import Hub gene into BioGPS database. Results: A total of 3 Hub genes were screened, namely CD3D, LCK, KLRB1;The genes were imported into BioGPS database to obtain the specific genes. Conclusion The selected differential genes and related signaling pathways are helpful to understand the molecular mechanism of ES and TB, and can provide the basis for early diagnosis of ES complicated with TB. It also provides new ideas for clinical treatment and diagnosis.

Bioinformatics Analysis of the Relationship between Dilated Cardiomyopathy and Chronic Heart Failure

Objective: To screen and analyze the differentially expressed genes between dilated cardiomyopathy (DCM) and chronic heart failure (CHF) based on bioinformatics methods. Methods: The Gene Expression Omnibus (GEO) database was used for data retrieval, and the chip data GSE3585 was downloaded, which was the original data of DCM and normal control group. At the same time, the chip data GSE76701 was downloaded, which was the original data of CHF and control group. Differentially expressed mRNAs (DEmRNAs) were screened by R language limma package, the data were standardized, and the common differentially expressed genes were screened. GO function and KEGG pathway enrichment analysis were performed on the common differentially expressed genes. String11.0 online tool was used for data analysis to obtain differentially expressed genes, and the results were imported into Cytoscape 3.9.1 software. The results were imported into Cytoscape 3.9.1 software, and the common expression gene module was obtained by MOCDE algorithm. Nine Hub genes were obtained by 10 algorithms such as MCC. Results: A total of 248 differentially expressed genes were screened. GO analysis showed that differentially expressed genes were mainly concentrated in 9 different physiological and pathological processes. KEGG analysis showed that the main signaling pathways involved in differentially expressed genes were 2, and 9 key differentially expressed genes were predicted: NPPB, NPPA, MYH6, FRZB, ASPN, SFRP4, RPS4Y1, DDX3Y. Conclusion: This study preliminarily explored the molecular mechanism of DCM and CHF, and obtained the common differentially expressed genes of the two diseases. Further experimental studies are needed to verify the correlation between gene expression and clinicopathological features. Provide new ideas for clinical drug treatment research.

烧结NdFeB磁体表面Zn-Al/T8超疏水复合涂层的显微组织及耐蚀性

为提升烧结NdFeB磁体的耐蚀性,采用旋涂法和等离子体增强化学气相沉积技术在其表面制备Zn-Al/T8(2-全氟辛基乙基丙烯酸酯)超疏水复合涂层。结果表明,Zn-Al涂层主要由片层状的Zn和Al相组成,厚度大约为28μm。Zn-Al/T8复合涂层的接触角达到151.78°,而滚动角仅为5.13°,说明Zn-Al/T8复合涂层可提供一个超疏水表面。Zn-Al涂层和Zn-Al/T8复合涂层对烧结NdFeB的磁性能均无显著影响。Zn-Al涂层通过牺牲阳极来提高NdFeB磁体的耐蚀性,而Zn-Al/T8复合涂层通过超疏水表面进一步提升耐蚀性。Zn-Al/T8复合涂层较Zn-Al涂层具有更好的耐盐雾性能。Zn-Al/T8超疏水复合涂层是一种非常有前途的烧结NdFeB磁体保护涂层。

化学“101计划”——化学生物学实验课程的建设

介绍了化学“101计划”核心课程之一“化学生物学实验”的建设情况。针对化学生物学学科的交叉特色、实验课程在学科研究中的重要作用和化学“101计划”的建设目标,本文分别从课程建设思路、教材内容及编写特色等方面进行了梳理和总结。

Yttrium‐and nitrogen‐doped NiCo phosphide nanosheets for high‐efficiency water electrolysis

Engineering high‐performance and low‐cost bifunctional catalysts for H_(2)(hydrogen evolution reaction[HER])and O_(2)(oxygen evolution reaction[OER])evolution under industrial electrocatalytic conditions remains challenging.Here,for the first time,we use the stronger electronegativity of a rare‐Earth yttrium ion(Y^(3+))to induce in situ NiCo‐layered double‐hydroxide nanosheets from NiCo foam(NCF)treated by a dielectric barrier discharge plasma NCF(PNCF),and then obtain nitrogen‐doped YNiCo phosphide(N‐YNiCoP/PNCF)after the phosphating process using radiofrequency plasma in nitrogen.The obtained NYNiCoP/PNCF has a large specific surface area,rich heterointerfaces,and an optimized electronic structure,inducing high electrocatalytic activity in HER(331mV vs.2000mA cm^(−2))and OER(464mV vs.2000mA cm^(−2))reactions in 1MKOH electrolyte.X‐ray absorption spectroscopy and density functional theory quantum chemistry calculations reveal that the coordination number of CoNi decreased with the incorporation of Y atoms,which induce much shorter bonds of Ni and Co ions and promote long‐term stability of N‐YNiCoP in HER and OER under the simulated industrial conditions.Meanwhile,the CoN‐YP_(5) heterointerface formed by plasma N‐doping is the active center for overall water splitting.This work expands the applications of rare‐Earth elements in engineering bifunctional electrocatalysts and provides a new avenue for designing highperformance transition‐metal‐based catalysts in the renewable energy field.

On-site rapid detection of multiple pesticide residues in tea leaves by lateral flow immunoassay

The application of pesticides (mostly insecticides and fungicides) during the tea-planting process will undoubtedly increase the dietary risk associated with drinking tea. Thus, it is necessary to ascertain whether pesticide residues in tea products exceed the maximum residue limits. However, the complex matrices present in tea samples comprise a major challenge in the analytical detection of pesticide residues. In this study, nine types of lateral flow immunochromatographic strips (LFICSs) were developed to detect the pesticides of interest (fenpropathrin, chlorpyrifos, imidacloprid, thiamethoxam, acetamiprid, carbendazim, chlorothalonil, pyraclostrobin, and iprodione). To reduce the interference of tea substrates on the assay sensitivity, the pretreatment conditions for tea samples, including the extraction solvent, extraction time, and purification agent, were optimized for the simultaneous detection of these pesticides. The entire testing procedure (including pretreatment and detection) could be completed within 30 min. The detected results of authentic tea samples were confirmed by ultra-performance liquid chromatography-tandem mass spectrometry (UPLC-MS/MS), which suggest that the LFICS coupled with sample rapid pretreatment can be used for on-site rapid screening of the target pesticide in tea products prior to their market release.

Exploring the mechanisms of calcium carbonate deposition on various substrates with implications for effective anti-scaling material selection

The unexpected scaling phenomena have resulted in significant damages to the oil and gas industries,leading to issues such as heat exchanger failures and pipeline clogging.It is of practical and fundamental importance to understand the scaling mechanisms and develop efficient anti-scaling strategies.However,the underlying surface interaction mechanisms of scalants(e.g.,calcite)with various substrates are still not fully understood.In this work,the colloidal probe atomic force microscopy(AFM)technique has been applied to directly quantify the surface forces between calcite particles and different metallic substrates,including carbon steel(CR1018),low alloy steel(4140),stainless steel(SS304)and tungsten carbide,under different water chemistries(i.e.,salinity and pH).Measured force profiles revealed that the attractive van der Waals(VDW)interaction contributed to the attachment of the calcium carbonate particles on substrate surfaces,while the repulsive electric double layer(EDL)interactions could inhibit the attachment behaviors.High salinity and acidic p H conditions of aqueous solutions could weaken the EDL repulsion and promote the attachment behavior.The adhesion of calcite particles with CR1018 and4140 substrates was much stronger than that with SS304 and tungsten carbide substrates.The bulk scaling tests in aqueous solutions from an industrial oil production process showed that much more severe scaling behaviors of calcite was detected on CR1018 and 4140 than those on SS304 and tungsten carbide,which agreed with surface force measurement results.Besides,high salinity and acidic p H can significantly enhance the scaling phenomena.This work provides fundamental insights into the scaling mechanisms of calcite at the nanoscale with practical implications for the selection of suitable antiscaling materials in petroleum industries.

Response and assembly of abundant and rare taxa in Zaopei under different combination patterns of Daqu and pit mud:from microbial ecology to Baijiu brewing microecosystem

The quality and aroma of strong-flavor Baijiu are mainly dependent on Daqu,pit mud(PM),and the interaction of both.However,little is known about how their combination patterns affect the microbiome and metabolome of Zaopei,especially the metabolic function of rare taxa.Here,an experiment on industrial size was designed to assess the effects of 6 combinations(3 kinds of Daqu×2 kinds of PM)on the composition and assembly of different taxa,as well as the flavor profile.The results showed that Zaopei's microbiota was composed of a few abundant taxa and enormous rare taxa,and rare bacterial and abundant fungal subcommunities were significantly affected by combination patterns.The assembly processes of abundant/rare taxa and bacterial/fungal communities were distinct,and environmental changes mediated the balance between stochastic and deterministic processes in rare bacteria assembly.Furthermore,specific combination patterns improved the flavor quality of Zaopei by enhancing the interspecies interaction,which was closely related to rare taxa,especially rare bacteria.These findings highlighted that rare bacteria might be the keystone in involving community interaction and maintaining metabolic function,which provided a scientific foundation for better understanding and regulating the brewing microbiota from the viewpoint of microbial ecology.

A progressive framework for rotary motion deblurring

The rotary motion deblurring is an inevitable procedure when the imaging seeker is mounted in the rotating missiles.Traditional rotary motion deblurring methods suffer from ringing artifacts and noise,especially for large blur extents.To solve the above problems,we propose a progressive rotary motion deblurring framework consisting of a coarse deblurring stage and a refinement stage.In the first stage,we design an adaptive blur extents factor(BE factor)to balance noise suppression and details reconstruction.And a novel deconvolution model is proposed based on BE factor.In the second stage,a triplescale deformable module CNN(TDM-CNN)is designed to reduce the ringing artifacts,which can exploit the 2D information of an image and adaptively adjust spatial sampling locations.To establish a standard evaluation benchmark,a real-world rotary motion blur dataset is proposed and released,which includes rotary blurred images and corresponding ground truth images with different blur angles.Experimental results demonstrate that the proposed method outperforms the state-of-the-art models on synthetic and real-world rotary motion blur datasets.The code and dataset are available at https://github.com/JinhuiQin/RotaryDeblurring.

Feature Matching via Topology-Aware Graph Interaction Model

Feature matching plays a key role in computer vision. However, due to the limitations of the descriptors, the putative matches are inevitably contaminated by massive outliers.This paper attempts to tackle the outlier filtering problem from two aspects. First, a robust and efficient graph interaction model,is proposed, with the assumption that matches are correlated with each other rather than independently distributed. To this end, we construct a graph based on the local relationships of matches and formulate the outlier filtering task as a binary labeling energy minimization problem, where the pairwise term encodes the interaction between matches. We further show that this formulation can be solved globally by graph cut algorithm. Our new formulation always improves the performance of previous localitybased method without noticeable deterioration in processing time,adding a few milliseconds. Second, to construct a better graph structure, a robust and geometrically meaningful topology-aware relationship is developed to capture the topology relationship between matches. The two components in sum lead to topology interaction matching(TIM), an effective and efficient method for outlier filtering. Extensive experiments on several large and diverse datasets for multiple vision tasks including general feature matching, as well as relative pose estimation, homography and fundamental matrix estimation, loop-closure detection, and multi-modal image matching, demonstrate that our TIM is more competitive than current state-of-the-art methods, in terms of generality, efficiency, and effectiveness. The source code is publicly available at http://github.com/YifanLu2000/TIM.

Subclinical impairment of left ventricular myocardium function in type 2 diabetes mellitus patients with or without hypertension

BACKGROUND Cardiovascular disease has been the leading cause of morbidity and mortality for type 2 diabetes mellitus(T2DM)patients over the last decade.AIM To determine whether layer-specific global longitudinal strain(GLS)combined with peak strain dispersion(PSD)can be used to assess left ventricle(LV)myocardium systolic dysfunction in T2DM patients or without hypertension(HP).METHODS We enrolled 97 T2DM patients,70 T2DM+HP patients and 101 healthy subjects.Layer-specific GLS and PSD were calculated by EchoPAC software in apical three-,four-and two-chamber views.GLS of the epimyocardial,middle-layer and endomyocardial(GLSepi,GLSmid,and GLSendo)were measured and recorded.Receiver operating characteristic analysis was performed to detect LV myocardium systolic dysfunction in T2DM patients.RESULTS There were significant differences in GLSepi,GLSmid,GLSendo,and PSD between healthy subjects,T2DM patients and T2DM patients with HP(P<0.001).Trend tests yielded the ranking of healthy subjects>T2DM patients>T2DM with HP patients in the absolute values of GLSepi,GLSmid and GLSendo(P<0.001),while PSD was ranked healthy subjects<T2DM<T2DM with HP(P<0.001).Layer-specific GLS and PSD had high diagnostic efficiency for detecting LV myocardium systolic dysfunction in T2DM patients,however,the area under the curve(AUC)for layer-specific GLS and PSD combined was significantly higher than the AUCs for the individual indices(P<0.05).CONCLUSION Layer-specific GLS and PSD were associated with LV myocardium systolic dysfunction in T2DM patients,T2DM patients with HP.T2DM patients with HP have more severe LV myocardium systolic dysfunction than T2DM patients without HP and normal control patients.The combination of layer-specific GLS and PSD may provide additional prognostic information for T2DM patients with or without HP.

Evaluation of left ventricular systolic function in type 2 diabetes mellitus patients with and without peripheral vascular disease

BACKGROUND Peripheral vascular disease(PVD)is a common complication of type 2 diabetes mellitus(T2DM).Patients with T2DM have twice the risk of PVD as nondiabetic patients.AIM To evaluate left ventricular(LV)systolic function by layer-specific global longitudinal strain(GLS)and peak strain dispersion(PSD)in T2DM patients with and without PVD.METHODS Sixty-five T2DM patients without PVD,57 T2DM patients with PVD and 63 normal controls were enrolled in the study.Layer-specific GLS[GLS of the epimyocardium(GLSepi),GLS of the middle myocardium(GLSmid)and GLS of the endocardium(GLSendo)]and PSD were calculated.Receiver operating characteristic(ROC)analysis was performed to calculate the sensitivity and specificity of LV systolic dysfunction in T2DM patients with PVD.We calculated Pearson’s correlation coefficients between biochemical data,echocardiographic characteristics,and layer-specific GLS and PSD.RESULTS There were significant differences in GLSepi,GLSmid and GLSendo between normal controls,T2DM patients without PVD and T2DM patients with PVD(P<0.001).Trend tests revealed a ranking of normal controls>T2DM patients without PVD>T2DM patients with PVD in the absolute value of GLS(P<0.001).PSD differed significantly between the three groups,and the trend ranking was as follows:normal controls<T2DM patients without PVD<T2DM patients with PVD(P<0.001).ROC analysis revealed that the combination of layer-specific GLS and PSD had high diagnostic efficiency for detecting LV systolic dysfunction in T2DM patients with PVD.Lowdensity lipoprotein cholesterol was positively correlated with GLSepi,GLSmid and PSD(P<0.05),while LV ejection fraction was negatively correlated with GLSepi,GLSmid and GLSendo in T2DM patients with PVD(P<0.01).CONCLUSION PVD may aggravate the deterioration of LV systolic dysfunction in T2DM patients.Layer-specific GLS and PSD can be used to detect LV systolic dysfunction accurately and conveniently in T2DM patients with or without PVD.

D2Net:Deep Denoising Network in Frequency Domain for Hyperspectral Image

Dear Editor,Since the existing hyperspectral image denoising methods suffer from excessive or incomplete denoising,leading to information distortion and loss,this letter proposes a deep denoising network in the frequency domain,termed D2Net.Our motivation stems from the observation that images from different hyperspectral image(HSI)bands share the same structural and contextual features while the reflectance variations in the spectra are mainly fallen on the details and textures.

Identification and fine mapping of PmNJ3946 for powdery mildew resistance in einkorn wheat

Powdery mildew caused by Blumeria graminis f.sp.tritici(Bgt)is a destructive wheat disease.Although it can be easily overcome by deployment of resistance genes,the resistance is often quickly compromised by pathogen virulence.Thus,exploration and characterization of new resistance genes is always ongoing.Line NJ3946 derived from a cross of einkorn wheat accessions TA2032 and M389 showed resistance to powdery mildew.Inheritance analysis of an F2 population derived from a cross of NJ3946 and M389 suggested that the resistance was conferred by a dominant allele.With polymorphic markers identified through bulked segregant analysis(BSA),this gene was mapped to a novel locus on chromosome 3A,and was designated as PmNJ3946.Bulked segregant RNA-seq analysis(BSR-seq)was conducted to obtain more closely linked markers,which allowed delimitation of the PMNJ3946 locus to a 0.9 cM interval covering a physical distance of less than 1 Mb.PMNJ3946 was flanked by Xwgrc5153 and SNP-derived marker CHS21_3A008915069,and co-segregated with SNP-derived markers CHS21_3A008939814 and CHS21_3A008943175.The PmNJ3946 discovery expands the diversity of powdery mildew resistance genes and is useful for wheat breeding.

3D bioprinting of complex biological structures with tunable elastic modulus and porosity using freeform reversible embedding of suspended hydrogels

Three-dimensional(3D)bioprinting has been used widely for the construction of hard tissues such as bone and cartilage.However,constructing soft tissues with complex structures remains a challenge.In this study,complex structures characterized by both tunable elastic modulus and porosity were printed using freeform reversible embedding of suspended hydrogels(FRESHs)printing methods.A mixture of alginate and gelatin was used as the main functional component of the bioink.Rheological analysis showed that this bioink possesses shear thinning and shear recovery properties,supporting both cryogenic and FRESH printing methods.Potential printing capabilities and limitations of cryogenic and FRESH printing were then analyzed by printability tests.A series of complex structures were printed by FRESH printing methods which could not be realized using conventional approaches.Mechanical tests and scanning electron microscopy analysis showed that the printed structure is of excellent flexibility and could be applied in various conditions by adjusting its mechanical modulus and porosity.L929 fibroblast cells maintained cell viability in cell-laden-printed structures,and the addition of collagen further improved the hydrogels’biocompatibility.Overall,all results provided useful insight into the building of human soft tissue organ blocks.

Critical Nodes Identification: A Non-Cooperative Method for Unknown Topology Information in Ad Hoc Networks

The foundation of ad hoc networks lies in the guarantee of continuous connectivity.However,critical nodes,whose failure can easily destroy network connectivity,will influence the ad hoc network connectivity significantly.To protect the network efficiently,critical nodes should be identified accurately and rapidly.Unlike existing critical node identification methods for unknown topology that identify critical nodes according to historical information,this paper develops a critical node identification method to relax the prior topology information condition about critical nodes.Specifically,we first deduce a theorem about the minimum communication range for a node through the number of nodes and deployment ranges,and prove the universality of the theorem in a realistic two-dimensional scenario.After that,we analyze the relationship between communication range and degree value for each node and prove that the greater number of nodes within the communication range of a node,the greater degree value of nodes with high probability.Moreover,we develop a novel strategy to improve the accuracy of critical node identification without topology information.Finally,simulation results indicate the proposed strategy can achieve high accuracy and low redundancy while ensuring low time consumption in the scenarios with unknown topology information in ad hoc networks.

Pocket Modification of x-Amine Transaminase AtATA for Overcoming the Trade-Off Between Activity and Stability Toward 1-Acetonaphthone

Amine transaminases(ATAs)catalyze the asymmetric amination of prochiral ketones or aldehydes to their corresponding chiral amines.However,the trade-off between activity and stability in enzyme engineering represents a major obstacle to the practical application of ATAs.Overcoming this trade-off is important for developing robustly engineered enzymes and a universal approach for ATAs.Herein,we modified the binding pocket of co-ATA from Aspergillus terreus(AtATA)to identify the key amino acid residues controlling the activity and stability of AtATA toward 1-acetonaphthone.We discovered a structural switch comprising four key amino acid sites(R128,V149,L182,and L187),as well as the"best"mutant(AtATAD224K/V149A/L182 F/L187F;termed M4).Compared to the parent enzyme AtATAD224K(AtATAPa),M4 increased the catalytic efficiency(k_(cat)/K_(m)^(1-acetonaphthone),where kcatis the constant of catalytic activities and is 10.1 min^(-1),K_(m)^(1-acetonaphthoneis) Michaelis-Menten constant and is 1.7 mmol·L^(-1))and half-life(t1/2)by 59-fold to 5.9 L·min^(-1)·mmol-1and by 1.6-fold to 46.9 min,respectively.Moreover,using M4 as the biocatalyst,we converted a 20 mmol·L^(-1)aliquot of 1-acetonaphthone in a 50 mL scaled-up system to the desired product,(R)-(+)-1(1-naphthyl)ethylamine((R)-NEA),with 78%yield and high enantiomeric purity(R>99.5%)within 10 h.M4 also displayed significantly enhanced activity toward various 1-acetonaphthone analogs.The related structural properties derived by analyzing structure and sequence information of robust ATAs illustrated their enhanced activity and thermostability.Strengthening of intramolecular interactions and expansion of the angle between the substratebinding pocket and the pyridoxal 5’-phosphate(PLP)-binding pocket contributed to synchronous enhancement of ATA thermostability and activity.Moreover,this pocket engineering strategy successfully transferred enhanced activity and thermostability to three other ATAs,which exhibited 8%-22%sequence similarity with AtATA.This research has important implications for overcoming the trade-off between ATA activity and thermostability.

Evolution of microstructure, stress and dislocation of AlN thick film on nanopatterned sapphire substrates by hydride vapor phase epitaxy

A crack-free AlN film with 4.5 μm thickness was grown on a 2-inch hole-type nano-patterned sapphire substrates(NPSSs) by hydride vapor phase epitaxy(HVPE). The coalescence, stress evolution, and dislocation annihilation mechanisms in the AlN layer have been investigated. The large voids located on the pattern region were caused by the undesirable parasitic crystallites grown on the sidewalls of the nano-pattern in the early growth stage. The coalescence of the c-plane AlN was hindered by these three-fold crystallites and the special triangle void appeared. The cross-sectional Raman line scan was used to characterize the change of stress with film thickness, which corresponds to the characteristics of different growth stages of AlN. Threading dislocations(TDs) mainly originate from the boundary between misaligned crystallites and the c-plane AlN and the coalescence of two adjacent c-plane AlN crystals, rather than the interface between sapphire and AlN.

Corrigendum to“Emerging Organic Contaminants in Chinese Surface Water:Identification of Priority Pollutants”[Engineering 11(2022)111-125]

The authors regret that the acceptable daily intake(ADI)values of 0.082 μg·kg^(-1)·d^(-1) for N,N-diethyl-3-methyl benzoyl amide(DEET),0.19 μg·kg^(-1)·d^(-1) for triclosan,and 0.83 μg·kg^(-1)·d^(-1) for acetaminophen cited from a review by Murray et al.[1],as shown in Table S4 in Appendix A of the original article,were not correct.

Effects of Different Feeding Patterns on the Growth of Micropterus salmoides

Three experimental groups with different feeding frequencies,different feeding rates and compensatory feeding were set up to study their effects on the growth of Micropterus salmoides.The results showed that different feeding rates of 2%,3%and 4%had no significant effects on the growth of M.salmoides.Therefore,before the individual weight of 50 g,the fish could be fed with a feeding rate of 4%,which could be gradually decreased to 2%in the later period.Under the condition of relatively fixed feeding rate,different feeding frequencies had an impact on the growth of M.salmoides.Under the conditions of suitable water temperature,it is reasonable to feed twice daily.The experimental fish fed for 5 d and then deprived of feed for 1 d showed fully compensatory growth,and there were no significant differences in weight gain rate,daily weight gain and specific growth rate compared with the continuous feeding group(P>0.05).Therefore,according to the feeding conditions of fish in the breeding process,stopping feeding for 1 d every 5 d could save feed and labor and improve breeding efficiency.