UBE2C as an Immune-Related Biomarker for Breast Cancer:A Study Based on Multiple Databases

Objective To screen the target genes that are associated with survival of breast cancer(BRCA) and explore their prognostic values and immune correlations with BRCA using multiple databases..Methods The microarray expression datasets of BRCA were downloaded from the Gene Expresssion Omnibus database(GEO) and analyzed to obtain differentially expressed genes(DEGs). Hub genes were obtained by constructing and visualizing the protein-protein interaction network of DEGs. The key gene was determined using R language, STRING, and Cytoscape, and the differential expression of the key gene was verified using external datasets The Cancer Genome Atlas(TCGA) and quantitative real-time PCR(q RT-PCR) for BRCA tissues of 37 patients. The prognostic value and immunological correlation of UBE2C in BRCA were explored using R language, TIMER, and Gene Set Enrichment Analysis(GSEA).Results Of 10 hub genes seleceed from 302 DEGS, UBE2C was identified as the gene associated with BRCA survival. The expression of UBE2C was differentially upregulated in BRCA, as verified by TCGA and q RT-PCR. Prognostic analysis revealed that UBE2C served as an independent prognostic factor. High expression of UBE2C was associated with decreased immune infiltration levels of B cells, CD4+ T cells, CD8+ T cells, macrophages, and myeloid dendritic cells in BRCA tissue. The expression of UBE2C in BRCA showed a significant correlation with immune checkpoints genes PDCD1, CD274, and CTLA4 expressions. There was a positive correlation between the expression of UBE2C and the tumor mutational burden and microsatellite instability. GSEA demonstrated that UBE2C expression significantly enriched 786 immune-related gene sets.Conclusions UBE2C expression in BRCA tissues is closely related to the BRCA immune microenvironment and showes predictive values on the survivals and prognosis of BRCA patients and the effecacy of immunotherapy. UBE2C may be an potential immune-related prognostic biomarker for BRCA.

S-57电子海图文件基础处理库的设计实现

国际海道测量组织制定的S-57标准是目前电子海图文件的主要国际标准,S-57数据集文件的处理是电子海图显示与信息系统的基础。在分析S-57标准理论数据模型、数据结构和产品规范的基础上,用C++实现了一套S-57数据集文件基础处理程序库,其功能包括目录文件、基础数据文件和改正数据文件的读取、数据改正以及物标信息解析。本库能完整地保持S-57文件的数据信息,较好地保持数据的原始逻辑结构,能提取物标完整的几何信息,获取物标的属性/类目信息。本库与具体的用户数据结构、用户文件格式无关,具备一定的通用性,可用于电子海图应用系统的底层开发。

Sex Pheromone Components of the Female Black Cutworm Moth in China: Identification and Field Trials

The sex pheromone blend of a China strain of the black cutworm moth Agrotis ypsilon （Rottemberg） （Lepidoptera： Noctuidae） was investigated. Chemical analysis of pheromone gland extracts of 3-day-old females showed that individual isolated glands contained only very small amounts of pheromone. The high-resolution gas chromatography combined with mass spectrometry （GC-MS） analysis showed the presence of Cis-7-dodecenyl acetate （Z7-12：Ac, A）, Cis-9-tetradecenyl acetate （Z9-14：Ac, B）, Cis- 11-hexadecenyl acetate （Z 11 - 16 ：Ac, C）, Cis-8-dodecenyl acetate （Z8-12：Ac, E） and Cis-5-decenyl acetate （Z5-10：Ac, D） in biologically active pheromone gland extracts. An extract of one gland from a day 3 female gave the following values for the gland components： 0.245±0.098ng for Z7-12：Ac, 0.080±0.031ng for Z9-14：Ac, 0.089±0.033ng for Z11-16：Ac, 0.085±0.031ng for Z5-10：Ac, 0.105±0.065ng for Z8-12：Ac per female. The percentages of Z7-12：Ac, Z9-14：Ac, Z11-16：Ac, Z5-10：Ac and ZS-12：Ac in pheromone gland extracts from individual females were （meaniSE） 40.451±13.66, 13.176±5.279, 14.943±5.142, 14.392±6.10 and 17.225±9.792 respectively, and the percentages of Z7-12：Ac, Z9-14：Ac and Z11-16：Ac were 58.75±9.429, 18.91±7.539 and 22.34±7.209. Field trials indicated that each single component of sex pheromone was non-effective and captured no males. The lures baited with duality compound of AB （3 ： 1） had a certain attraction to males, the mean captured number was 2.6. The attraction ability of the lures baited with ternary compound of ABC （3 ： 1 ：1） to males added significantly, the mean captured number per trap was 7.40, which was 2.8 times of duality compound of AB （3 ： 1）. The contents of sex pheromone could obviously affect its capture ability to males, the mean captured number was the highest at the dosage of 200 μg.

Molecular Detection of Healthiness of Bombyx mori

[Objective] The paper was to explore the regularity between heat shock protein expression and the healthiness changes of Bombyx moil materials. [Method] The representative heat shock protein gene Bmhsp24.3 was screened by bioinfor- matic analysis method, and carried out real-time PCR expression analysis. [Result] The target gene Bmhsp24.3 expressed in different B. mori materials, but the expres- sion level in different materials significantly varied. The relative expression level of the gene had different degrees of changes under different rearing conditions. With the increase of rearing temperature, the gene expression was upregulated. The ma- terials with better healthiness had remarkable increase in expression of target gene, while the materials with poorer healthiness had less increase in expression of target gene. The expression difference of target gene Bmhsp24.3 was exactly consistent with the healthiness of breeds. [Conclusion] The healthiness of materials had rela- tionship with expression of target gene Bmhsp24.3. the higher the expression of tar- get gene Bmhsp24.3 was, the better the healthiness of materials was; conversely, the lower the expression of target gene Bmhsp24.3 was, the poorer the healthiness of materials was.

Landfill Site Selection in AI-Najaf Governorate, Iraq

Solid waste management aspect is one of the most important challenges facing the local administration in the Govemorate of Najaf. Therefore, this study aims to provide for solid waste management problem by choosing the best locations for the establishment of sanitary landfills in the governorate. In this study, GIS （geographic information system） and MCDA （multi-criteria decision analysis） were used based on 17 environmental, economic and geological criteria converted to input digital map layers. These were urban centres, cemetery, airports, electrical power lines, oil pipes, railways, roads, slope, historical sites, main rivers, industrial areas, religion sites, wells, military area, electrical power plants, nature reserves and national borders to select most importance sites in the govemorate. AHP （analytic hierarchy process） method was used in weighting the criteria used. All layers＇ maps were graded from 0 （not suitable） to 5 （most suitable） using spatial information scale then SAW （simple additive weighting） method was integrated in GIS used to calculate the suitability index for the studied area. The results indicated that 4.4% of the study region is suitable for landfill siting with grading values greater than 4.0. This included five sites distributed in three qadhaas of governorate.

一种ENC数据在空间信息平台下的转换方法

通过解析电子航海图(electronic navigational chart,ENC)的数据空间组织结构与数据模型,提出一种利用数据存储方式建设ENC专题数据库的方法,这种存储方式解决了多物标类多属性的统一存储问题,简化了数据的存储结构。同时,基于设计的ENC数据解析与读取方法,结合ENC动态符号化技术,在空间信息平台下对ENC数据进行解析与转换,实现ENC数据的转换与标准化显示。该方法可以为ENC、海事异构数据整合与共享问题的解决提供支持。采用大连部分海域的ENC数据进行数据转换与共享研究,实现海图中物标属性、物标关系等信息的解析。该方法可解决制约海事测绘发展的瓶颈问题,为未来多源航行环境数据的融合匹配提供支撑。

Edge biomarkers for classification and prediction of phenotypes

In general,a disease manifests not from malfunction of individual molecules but from failure of the relevant system or network,which can be considered as a set of interactions or edges among molecules.Thus,instead of individual molecules,networks or edges are stable forms to reliably characterize complex diseases.This paper reviews both traditional node biomarkers and edge biomarkers,which have been newly proposed.These biomarkers are classified in terms of their contained information.In particular,we show that edge and network biomarkers provide novel ways of stably and reliably diagnosing the disease state of a sample.First,we categorize the biomarkers based on the information used in the learning and prediction steps.We then briefly introduce conventional node biomarkers,or molecular biomarkers without network information,and their computational approaches.The main focus of this paper is edge and network biomarkers,which exploit network information to improve the accuracy of diagnosis and prognosis.Moreover,by extracting both network and dynamic information from the data,we can develop dynamical network and edge biomarkers.These biomarkers not only diagnose the immediate pre-disease state but also detect the critical molecules or networks by which the biological system progresses from the healthy to the disease state.The identified critical molecules can be used as drug targets,and the critical state indicates the critical point of disease control.The paper also discusses representative biomarker-based methods.

Critical role of bioinformatics in translating huge amounts of next-generation sequencing data into personalized medicine

Realizing personalized medicine requires integrating diverse data types with bioinformatics.The most vital data are genomic information for individuals that are from advanced next-generation sequencing(NGS) technologies at present.The technologies continue to advance in terms of both decreasing cost and sequencing speed with concomitant increase in the amount and complexity of the data.The prodigious data together with the requisite computational pipelines for data analysis and interpretation are stressors to IT infrastructure and the scientists conducting the work alike.Bioinformatics is increasingly becoming the rate-limiting step with numerous challenges to be overcome for translating NGS data for personalized medicine.We review some key bioinformatics tasks,issues,and challenges in contexts of IT requirements,data quality,analysis tools and pipelines,and validation of biomarkers.

The diagnostic and prognostic value of CCTs in human hepatocellular carcinoma: a study based on integrated bioinformatics

Chaperonin-containing tailless complex polypeptide 1(CCT) is a group of genes involved in protein folding. It has been reported to be associated with the genesis and development of multiple tumors. However, the expression levels and functions of distinct CCTs involved in carcinogenesis and progression of hepatocellular carcinoma(HCC) have not been systematically analyzed. In the present study, we aimed to investigate the expression and mutation patterns, diagnostic and prognostic value, and functional enrichment of CCTs in HCC using ONCOMINE, GEPIA, the Human Protein Atlas, cBioPortal, Kaplan-Meier Plotter, and R language. The transcriptional and translational levels of all CCT family members were remarkably higher in HCC patients and related to the tumor stage. All CCT family members, especially CCT2 and CCT8, might serve as promising diagnostic, prognostic markers as well as therapeutic targets for HCC.