High-resolution structure of viruses from random diffraction snapshots

The advent of the X-ray free-electron laser (XFEL) has made it possible to record diffraction snapshots of biological entities injected into the X-ray beam before the onset of radiation damage. Algorithmic means must then be used to determine the snapshot orientations and thence the three-dimensional structure of the object. Existing Bayesian approaches are limited in reconstruction resolution typically to 1/10 of the object diameter, with the computational expense increasing as the eighth power of the ratio of diameter to resolution. We present an approach capable of exploiting object symmetries to recover three-dimensional structure to high resolution, and thus reconstruct the structure of the satellite tobacco necrosis virus to atomic level. Our approach offers the highest reconstruction resolution for XFEL snapshots to date and provides a potentially powerful alternative route for analysis of data from crystalline and nano-crystalline objects.     

DeepMHADTA: Prediction of Drug-Target Binding Affinity Using Multi-Head Self-Attention and Convolutional Neural Network

Drug-target interactions provide insight into the drug-side effects and drug repositioning. However, wet-lab biochemical experiments are time-consuming and labor-intensive, and are insufficient to meet the pressing demand for drug research and development. With the rapid advancement of deep learning, computational methods are increasingly applied to screen drug-target interactions. Many methods consider this problem as a binary classification task (binding or not), but ignore the quantitative binding affinity. In this paper, we propose a new end-to-end deep learning method called DeepMHADTA, which uses the multi-head self-attention mechanism in a deep residual network to predict drug-target binding affinity. On two benchmark datasets, our method outperformed several current state-of-the-art methods in terms of multiple performance measures, including mean square error (MSE), consistency index (CI), rm2, and PR curve area (AUPR). The results demonstrated that our method achieved better performance in predicting the drug–target binding affinity.     

植入了骨修复材料的小型猪腰椎椎体不脱钙病理组织切片制备方法

摘要 目的：建立植入了骨修复材料小型猪腰椎椎体骨组织标本的不脱钙病理组织切片制备方法。方法：将含骨修复材料的腰椎椎体骨组织标本进行分割暴露组织切面,梯度浓度乙醇脱水后经Technovit 7200 VLC光聚树脂浸润,经黄蓝光共同辐照进行光聚合包埋,借助硬组织病理切磨系统制备含骨修复材料不脱钙病理组织切片。结果：结果显示通过上述方法制备的病理组织切片,经苏木精-伊红（HE）染色及甲苯胺蓝染色后光学显微镜下观察能较好地显示骨的各种组织细胞结构,可清晰的观察到骨小梁的走向及连接情况。结论：研究建立了含骨修复材料骨组织标本病理组织切片制备方法,实现了含骨修复材料不脱钙骨组织病理切片的制备,经病理染色后实现了带植入物的组织学观察,为生物材料及医疗器械动物试验研究提供了新的病理检测手段及组织学评价途径。     

Advanced Cell Mapping Visualizations for Single Cell Functional Proteomics Enabling Patient Stratification

Highly multiplexed single‐cell functional proteomics has emerged as one of the next‐generation toolkits for a deeper understanding of functional heterogeneity in cell. Different from the conventional population‐based bulk and single‐cell RNA‐Seq assays, the microchip‐based proteomics at the single‐cell resolution enables a unique identification of highly polyfunctional cell subsets that co‐secrete many proteins from live single cells and most importantly correlate with patient response to a therapy. The 32‐plex IsoCode chip technology has defined a polyfunctional strength index (PSI) of pre‐infusion anti‐CD19 chimeric antigen receptor (CAR)‐T products, that is significantly associated with patient response to the CAR‐T cell therapy. To complement the clinical relevance of the PSI, a comprehensive visualization toolkit of 3D uniform manifold approximation and projection (UMAP) and t‐distributed stochastic neighbor embedding (t‐SNE) in a proteomic analysis pipeline is developed, providing more advanced analytical algorithms for more intuitive data visualizations. The UMAP and t‐SNE of anti‐CD19 CAR‐T products reveal distinct cytokine profiles between nonresponders and responders and demonstrate a marked upregulation of antitumor‐associated cytokine signatures in CAR‐T cells from responding patients. Using this powerful while user‐friendly analytical tool, the multi‐dimensional single‐cell data can be dissected from complex immune responses and uncover underlying mechanisms, which can promote correlative biomarker discovery, improved bioprocessing, and personalized treatment development.     

微贮用植物乳杆菌固定化菌剂的制备

乳酸菌与纤维素降解菌因其可防止微贮饲料酸败、增加秸秆饲料的营养价值等优点,在秸秆微贮过程中起重要作用。但由于乳酸菌的繁殖会抑制纤维素降解菌的活性,如何实现微贮过程中两种微生物分时发挥功能是解决上述问题的关键。文中利用固定化技术将乳酸菌制备成含有玉米秸秆粉的固定化菌剂以达到缓释的目的。首先制作固定化空白小球得出复合固定化载体成球的最佳浓度,利用玉米芯吸附植物乳杆菌S1得到复合固定化载体,以对S1的包埋率、成球效果等为指标,通过对比两种固定化方法 (包埋法与包埋-交联法),得到固定化植物乳杆菌S1的最佳条件。研究表明,使用6%PVA+0.4%SA+0.3%CMC-Na进行包埋-交联时成球效果最好,使用1.2%SA+0.5%CMC-Na进行直接包埋时成球效果最好。通过对比5种固定化工艺,将1.2%SA+0.5%CMC-Na和吸附玉米粉组成的固定化载体混合物逐滴滴入4%氯化钙中直接包埋24 h得到的固定化小球其机械强度以及包埋率均优于其他工艺。因此,利用玉米芯吸附-海藻酸钠包埋的方法可以有效提高植物乳杆菌包埋效率,为使用固定化技术制备微贮饲料菌剂奠定基础。     

关节镜下胫骨嵌入术治疗膝关节后交叉韧带损伤的临床效果及安全性分析

目的：探讨关节镜下胫骨嵌入术治疗膝关节后交叉韧带损伤患者的临床疗效及安全性。方法：回顾性分析2013 年2 月至 2014 年2 月在我院接受关节镜下胫骨嵌入术治疗的膝关节膝关节后交叉韧带损伤患者36 例的临床资料，比较手术前后 Lysholm 膝关节评分、KT-2000 关节测量值、后抽屉试验与Lachman 征的差异。结果：与手术前比较，手术后6 个月患膝Lysholm 膝关节评分、KT-2000 关节测量值及物理检查(后抽屉试验试验与Lachman 征)均明显改善，差异具有统计学意义(P<0.05)。全部患 者术后无韧带断裂、免疫排斥反应等现象。结论：关节镜下胫骨Inlay技术对膝关节PCL损伤患者的临床疗效显著，安全性高，值 得临床推广应用。     

Sorption of phosphorus by the iron oxide-impregnated filter paper (Pi soil test) embedded in soils

Incubation experiments were carried out to evaluate the feasibility of extracting phosphorus from soil by embedding iron oxide-impregnanted filter paper strips (P_i strips) in soils having a wide range in pH, texture, and extractable-P contents. Under flooded conditions, the amount of P extracted by the P_i strips increased with the period of submergence and embedding time of the P_i strips. Under unsaturated conditions, the P_i strips were found to extract P from soils over a wide range in moisture conditions; however, keeping the soil at moisture level between saturation and field capacity was found to result in maximal sorption of P by the strips. An embedding time of 16 h was found to be adequate.Phosphorus extracted by embedding P_i strips in soil columns for 16 h at field capacity moisture level correlated significantly with P extracted by shaking the soil with 0.01 M CaCl₂ solution and a P_i strip for 16 h in the laboratory (r=0.94^**). The P extracted by embedding P_i strips correlated best with Bray 1 P in acid soils (r=0.97^**) and with Olsen P in alkaline and calcareous soils (r=0.96^**). The results of the studies demonstrate the feasibility of developing a nondestructive method of monitoring changes in plant-available P in situ under field conditions.     

A Double-Embedding Technique for Thin Tissue Membranes

A new double-embedding technique for thin tissue membranes is presented. This technique is useful for thin membranes such as mesenteric membranes from rodents, which usually measure only 10 μm in thickness. Several membranes are fixed and mounted on four needles located at the bottom of a plastic box. The box is filled with agarose at 50 C and then allowed to solidify. The agarose block is then removed, dehydrated in alcohol, cleared with Histo Petrol (isoparaffin hydrocarbons), permeated with paraffin and sectioned. The morphology is comparable to that obtained with methacrylate plastic embedding but is less time-consuming, less hazardous since no plastic hardener and activator are used and makes immunohistochemical studies easier.     

百会穴埋线配合认知行为干预对卒中后便秘患者的影响

目的:探讨百会穴埋线配合认知行为干预对卒中后便秘患者的影响,为减轻临床脑卒中患者便秘症状提供思路。方法:选取黑龙江省某三级甲等医院针灸三科住院的脑卒中便秘患者120例,随机分为四组,对照组给予常规护理,其他组均在常规护理的基础上予以相应的干预措施,试验组1给予认知行为干预,试验组2给予百会穴埋线,试验组3给予百会穴埋线加认知行为干预。比较干预前、干预后7天、干预后14天的四组便秘临床症状积分、便秘治疗效果。结果:干预14天后,四组便秘症状积分均显著低于干预前(P0.05),且试验组1、试验组2和试验组3便秘症状积分均低于对照组,试验组3便秘症状积分最低(P0.05),试验组3的便秘治疗总有效率为92.86%,显著高于其他三组(P0.05)。结论:与常规治疗、常规治疗联合百会穴埋线或认知行为干预相比,百会穴埋线配合认知行为干预可显著提高脑卒中患者便秘的临床效果。     

Plant regeneration from protoplasts of sugar beet (Beta vulgaris)

Mesophyll protoplasts from two of five sugar beet lines tested were regenerated into plants. Mesophyll protoplasts of all lines showed high plating efficiencies up to 4.0% developed hard compact callus, and two of the lines also developed white, soft and friable callus consisting of starch grain-containing cells. Whereas the compact callus never regenerated into plants, the white friable ones frequently developed globular structures, which became green in the light and formed adventitious shoots after cytokinin (BAP or thidiazuron) treatment. Genetic analysis by PCR-fingerprinting and flow cytometry showed uniformity and unchanged ploidy levels in 15 independently regenerated plantlets in line NF. but altered ploidy level (from diploid to triploid) in a regenerated plantlet of clone VRB.