Prediction of drug-target interaction by integrating diverse heterogeneous information source with multiple kernel learning and clustering methods

BackgroundIdentification of potential drug-target interaction pairs is very important for pharmaceutical innovation and drug discovery. Numerous machine learning-based and network-based algorithms have been developed for predicting drug-target interactions. However, large-scale pharmacological, genomic and chemical datum emerged recently provide new opportunity for further heightening the accuracy of drug-target interactions prediction.ResultsIn this work, based on the assumption that similar drugs tend to interact with similar proteins and vice versa, we developed a novel computational method (namely MKLC-BiRW) to predict new drug-target interactions. MKLC-BiRW integrates diverse drug-related and target-related heterogeneous information source by using the multiple kernel learning and clustering methods to generate the drug and target similarity matrices, in which the low similarity elements are set to zero to build the drug and target similarity correction networks. By incorporating these drug and target similarity correction networks with known drug-target interaction bipartite graph, MKLC-BiRW constructs the heterogeneous network on which Bi-random walk algorithm is adopted to infer the potential drug-target interactions.ConclusionsCompared with other existing state-of-the-art methods, MKLC-BiRW achieves the best performance in terms of AUC and AUPR. MKLC-BiRW can effectively predict the potential drug-target interactions.     

Enhanced 1T′-Phase Stabilization and Chemical Reactivity in a MoTe2 Monolayer through Contact with a 2D Ca2N Electride

Among the widely studied 2D transition metal dichalcogenides (TMDs), MoTe₂ has attracted special interest for phase-change applications due to its small 2H-1T′ energy difference, yet a large scale phase transition without structural disruption remains a significant challenge. Recently, an interesting long-range phase engineering of MoTe₂ has been realized experimentally by Ca₂N electride. However, the interface formed between them has not been well understood, and moreover, it remains elusive how the presence of Ca₂N would affect the basal plane reactivity of MoTe₂. To address this, we performed density functional theory (DFT) calculations to investigate the potential of tuning the phase stability and chemical reactivity of a MoTe₂ monolayer via interacting with Ca₂N to form a van der Walls heterostructure. We found that the contact nature at the 2H-MoTe₂/Ca₂N interface is Schottky-barrier-free, allowing for the spontaneous electron transfer from Ca₂N to 2H-MoTe₂ to make it strongly n-type doped. Moreover, Ca₂N doping significantly lowers the energy of 1T′-MoTe₂ and dynamically triggers the 2H-to-1T′ transformation. The Ca₂N-induced phase modulation can also be applied to tune the phase energetics of MoS₂ and MoSe₂. Furthermore, using H adsorption as the testing ground, we also find that the H binding on the basal plane of MoTe₂ is enhanced after forming heterostructure with Ca₂N, potentially providing basis for surface modification and other related catalytic applications.     

Growth and characterization of two-dimensional crystals for communication and energy applications

This review article covers the growth and characterization of two-dimensional (2D) crystals of transition metal chalcogenides, h-BN, graphene, etc. The chemical vapor transport method for bulk single crystal growth is discussed in detail. Top-down methods like mechanical and liquid exfoliation and bottom-up methods like chemical vapor deposition and molecular beam epitaxy for mono/few-layer growth are described. The optimal characterization techniques such as optical, atomic force, scanning electron, and Raman spectroscopy for identification of mono/few-layer(s) of the 2D crystals are discussed. In addition, a survey was done for the application of 2D crystals for both creation and deterministic transfer of single-photon sources and photovoltaic systems. Finally, the application of plasmonic nanoantenna was proposed for enhanced solar-to-electrical energy conversion and faster/brighter quantum communication devices.     

Insight into room-temperature catalytic oxidation of NO by CrO2(110): A DFT study

The first-principles DFT calculations together with microkinetic analysis reveal the complex catalytic mechanism of low-content NO oxidation on CrO₂(110) at room temperature. It quantitatively makes clear that CrO₂(110) can exhibit considerable activity with the Mars-van-Krevelen mechanism preferred, and the nitrate species serves as the key poisoning species.     

有限群共轭类长度的一点注记

假设G=AB是子群A和B的互相置换积。通过A?B中元素的共轭类长度给出了群G的结构，推广了一些最近的结论。     

Thermoelastic solutions for thermal distributions moving over thin slim rod under memory-dependent three-phase lag magneto-thermoelasticity

Abstract

Enlightened by the Caputo fractional derivative, the present study deals with a novel mathematical model of generalized thermoelasticity to investigate the transient phenomena due to the influence of magnetic field and moving heat source in a rod in the context of three-phase lag (TPL) theory of thermoelasticity. Both ends of the rod are fixed and heat insulated. Employing Laplace transform as a tool, the problem has been transformed into the space-domain and solved analytically. Finally, solutions in the real-time domain are obtained by applying the inverse Laplace transform. Numerical calculation for stress, displacement, and temperature within the rod is carried out and displayed graphically. The effect of moving heat source speed on temperature, stress, and temperature is studied. It is found from the distributions that the temperature, thermally induced displacement and stress of the rod are found to decrease at large source speed. For the better understanding of the effect of moving heat source on all the distributions, three animations are added.     

明代生命损失型地震的时空分布特征及成因分析

利用史料记录建立了明代生命损失型地震的数据库，构建生命损失型地震等级序列、10 a尺度上生命损失型地震的频次序列和县次序列，再现明代生命损失型地震的时空分布特征，探讨了生命损失型地震发生及导致人口死亡的时空差异原因。结果表明：（1）从明初到明末，生命损失型地震等级强度有逐渐扩大的趋势。（2）明代前期处于生命损失型地震发生较少的稳定时期；明代中后期处于生命损失型地震发生较多的波动时期。明代生命损失型地震发生频次存在明显的周期性变化特征。（3）生命损失型地震在明代大部分区域皆有分布。灾害重心随时间变化发生移动，由西南到中部再到华北、华东。（4）明代地震频繁的原因除地球本身因素外，太阳活动通过影响气候变化，进而间接影响地壳活动。气候寒冷与干旱和地震有较好的对应关系。明代后期生命损失型地震导致死亡人数大量增加，与明代经济发展，人口密度逐渐增长有关；不同地区生命损失型地震导致的死亡人数不同，且死亡人数与地震频发地区是否处于板块之间的活动构造带和人口分布密度有关。     

In-chain functionalization through the combination of ring opening copolymerization and oxime “Click” reaction towards X-ray opaque polylactide copolymers

X-ray imaging functionalization of biodegradable polyesters is a great demand and challenge in biomedical applications.In this work,a strategy of in-chain functionalization through the combination of ring opening copolymerization and oxime "Click" postfunctionalization was developed towards X-ray opaque polylactide copolymers.A functionalized cyclic carbonate was first synthesized and used as comonomer of polylactide copolymers,which were subjected to postfunctionalization of oxime "Click" reaction towards iodinated polylactide copolymers.The chemical structure and physical properties of the target products were traced and confirmed.In vitro cytotoxicity evaluation with 3T3-Swiss albino by Alamar blue demonstrated a low cytotoxicity.The X-ray radiopacity was analyzed by Micro-CT and quantified by Hounsfield Units value,which could be tailorable by the feedstock.It is a promising X-ray visible implantable biomaterial in biomedical applications.     

MALDI MSI Reveals the Spatial Distribution of Protein Markers in Tracheobronchial Lymph Nodes and Lung of Pigs after Respiratory Infection

Respiratory infections are a real threat for humans, and therefore the pig model is of interest for studies. As one of a case for studies, Actinobacillus pleuropneumoniae (APP) caused infections and still worries many pig breeders around the world. To better understand the influence of pathogenic effect of APP on a respiratory system—lungs and tracheobronchial lymph nodes (TBLN), we aimed to employ matrix-assisted laser desorption/ionization time-of-flight mass spectrometry imaging (MALDI-TOF MSI). In this study, six pigs were intranasally infected by APP and two were used as non-infected control, and 48 cryosections have been obtained. MALDI-TOF MSI and immunohistochemistry (IHC) were used to study spatial distribution of infectious markers, especially interleukins, in cryosections of porcine tissues of lungs (necrotic area, marginal zone) and tracheobronchial lymph nodes (TBLN) from pigs infected by APP. CD163, interleukin 1β (IL-1β) and a protegrin-4 precursor were successfully detected based on their tryptic fragments. CD163 and IL-1β were confirmed also by IHC. The protegrin-4 precursor was identified by MALDI-TOF/TOF directly on the tissue cryosections. CD163, IL-1β and protegrin-4 precursor were all significantly (p < 0.001) more expressed in necrotic areas of lungs infected by APP than in marginal zone, TBLN and in control lungs.