Challenges in using geographic information systems (GIS) to understand and control malaria in Indonesia

Malaria is a mosquito-borne disease of global concern with 1.5 to 2.7 million people dying each year and many more suffering from it. In Indonesia, malaria is a major public health issue with around six million clinical cases and 700 deaths each year. Malaria is most prevalent in the developing countries of the world. Aid agencies have provided financial and technical assistance to malaria-prone countries in an effort to battle the disease. Over the past decade, the focus of some of this assistance has been in the provision of geographic information systems (GIS) hardware, software and training. In theory, GIS can be a very effective tool in combating malaria, however, in practice there have been a host of challenges to its successful use.This review is based, in part, on the literature but also on our experience working with the Indonesian Ministry of Health. The review identifies three broad problem areas. The first of these relates to data concerns. Without adequate data, GIS is not very useful. Specific problem areas include: accurate data on the disease and how it is reported; basic environmental data on vegetation, land uses, topography, rainfall, etc.; and demographic data on the movement of people. The second problem area involves technology - specifically computer hardware, GIS software and training. The third problem area concerns methods - assuming the previous data and technological problems have been resolved - how can GIS be used to improve our understanding of malaria? One of the main methodological tools is spatial statistical analysis, however, this is a newly developing field, is not easy to understand and suffers from the fact that there is no agreement on standard methods of analysis.The paper concludes with a discussion of strategies that can be used to overcome some of these problems. One of these strategies involves using ArcView GIS software in combination with ArcExplorer (a public domain program that can read ArcView files) to deal with the problem of needing multiple copies of GIS software. Another strategy involves the development of a self-paced training package that can be used to train individuals     

Using geographic information systems to identify prospective marketing areas for a special library

Background

The Center for Disability Resources (CDR) Library is the largest collection of its kind in the Southeastern United States, consisting of over 5,200 books, videos/DVDs, brochures, and audiotapes covering a variety of disability-related topics, from autism to transition resources. The purpose of the library is to support the information needs of families, faculty, students, staff, and other professionals in South Carolina working with individuals with disabilities. The CDR Library is funded on a yearly basis; therefore, maintaining high usage is crucial. A variety of promotional efforts have been used to attract new patrons to the library. Anyone in South Carolina can check out materials from the library, and most of the patrons use the library remotely by requesting materials, which are then mailed to them. The goal of this project was to identify areas of low geographic usage as a means of identifying locations for future library marketing efforts.

Methods

Nearly four years worth of library statistics were compiled in a spreadsheet that provided information per county on the number of checkouts, the number of renewals, and the population. Five maps were created using ArcView GIS software to create visual representations of patron checkout and renewal behavior per county.

Results

Out of the 46 counties in South Carolina, eight counties never checked out materials from the library. As expected urban areas and counties near the library's physical location have high usage totals.

Conclusion

The visual representation of the data made identification of low usage regions easier than using a standalone database with no visual-spatial component. The low usage counties will be the focus of future Center for Disability Resources Library marketing efforts. Due to the impressive visual-spatial representations created with Geographic Information Systems, which more efficiently communicate information than stand-alone database information can, librarians may benefit from the software's use as a supplemental tool for tracking library usage and planning promotional efforts.

     

Forest Fire Risk Analysis

Southern Europe suffers from forest fires. The management of these disasters is of importance to both government authorities and the public. This article presents the results of a research project aimed at modeling forest fire events and producing fire risk maps. The mathematical model is embedded in an ArcView Geographic Information System (GIS) platform. The interface is in Visual C++ 6.0. The thematic and individual risk maps generated are merged into an integrated risk map. The assessment platform (model, GIS, data, decision support) was applied to the area of northern Evia Island, central Greece, using five different scenarios. The platform provides a tool for use by authorities to estimate risks for forest fire management. The model was specifically adapted for the Olympic Games of 2004, Athens, Greece.     

Identifying unique neighborhood characteristics to guide health planning for stroke and heart attack: fuzzy cluster and discriminant analyses approaches

Background

Socioeconomic, demographic, and geographic factors are known determinants of stroke and myocardial infarction (MI) risk. Clustering of these factors in neighborhoods needs to be taken into consideration during planning, prioritization and implementation of health programs intended to reduce disparities. Given the complex and multidimensional nature of these factors, multivariate methods are needed to identify neighborhood clusters of these determinants so as to better understand the unique neighborhood profiles. This information is critical for evidence-based health planning and service provision. Therefore, this study used a robust multivariate approach to classify neighborhoods and identify their socio-demographic characteristics so as to provide information for evidence-based neighborhood health planning for stroke and MI.

Methods and Findings

The study was performed in East Tennessee Appalachia, an area with one of the highest stroke and MI risks in USA. Robust principal component analysis was performed on neighborhood (census tract) socioeconomic and demographic characteristics, obtained from the US Census, to reduce the dimensionality and influence of outliers in the data. Fuzzy cluster analysis was used to classify neighborhoods into Peer Neighborhoods (PNs) based on their socioeconomic and demographic characteristics. Nearest neighbor discriminant analysis and decision trees were used to validate PNs and determine the characteristics important for discrimination. Stroke and MI mortality risks were compared across PNs. Four distinct PNs were identified and their unique characteristics and potential health needs described. The highest risk of stroke and MI mortality tended to occur in less affluent PNs located in urban areas, while the suburban most affluent PNs had the lowest risk.

Conclusions

Implementation of this multivariate strategy provides health planners useful information to better understand and effectively plan for the unique neighborhood health needs and is important in guiding resource allocation, service provision, and policy decisions to address neighborhood health disparities and improve population health.     

NIH library资源建设与服务研究

National Institutes of Health(美国国立卫生研究院,简称NIH)是国家级医学研究机构。NIH library是为NIH成员提供信息资源及服务的主要机构。本文从发展历史、馆藏发展策略、资源建设经费来源、信息资源揭示和整合、用户需求分析、信息服务5个方面调研分析了NIH library资源建设和服务现状,以期为国内医学图书馆提供借鉴。     

Construction and characterization of a soybean bacterial artificial chromosome library and use of multiple complementary libraries for genome physical mapping

Two plant-transformation-competent large-insert binary clone bacterial artificial chromosome (hereafter BIBAC) libraries were previously constructed for soybean cv. Forrest, using BamHI or HindIII. However, they are not well suited for clone-based genomic sequencing due to their larger ratio of vector to insert size (27.6 kbp:125 kbp). Therefore, we developed a larger-insert bacterial artificial chromosome (BAC) library for the genotype in a smaller vector (pECBAC1), using EcoRI. The BAC library contains 38,400 clones; about 99.1% of the clones have inserts; the average insert size is 157 kbp; and the ratio of vector to insert size is much smaller (7.5 kbp:157 kbp). Colony hybridization with probes derived from several chloroplast and mitochondrial genes showed that 0.89% and 0.45% of the clones were derived from the chloroplast and mitochondrial genomes, respectively. Considering these data, the library represents 5.4 haploid genomes of soybean. The library was hybridized with six RFLP marker probes, 5S rDNA and 18S-5.8S-25S rDNA, respectively. Each RFLP marker hybridized to about six clones, and the 5S and 18S-5.8S-25S rDNA probes collectively hybridized to 402 BACs—about 1.05% of the clones in the library. The BAC library complements the existing soybean Forrest BIBAC libraries by using different restriction enzymes and vector systems. Together, the BAC and BIBAC libraries encompass 13.2 haploid genomes, providing the most comprehensive clone resource for a single soybean genotype for public genome research. We show that the BAC library has enhanced the development of the soybean whole-genome physical map and use of three complementary BAC libraries improves genome physical mapping by fingerprint analysis of most of the clones of the library. The rDNA-containing clones were also fingerprinted to evaluate the feasibility of constructing contig maps of the rDNA regions. It was found that physical maps for the rDNA regions could not be readily constructed by fingerprint analysis, using one or two restriction enzymes. Additional data to fingerprints and/or different fingerprinting methods are needed to build contig maps for such highly tandem repetitive regions and thus, the physical map of the entire soybean genome.     

The Medical Library Service of the College of Physicians and Surgeons of British Columbia

A unique provincial medical library service has been established in British Columbia. Under the direction of professional librarians, the central library in Vancouver is building an extensive, largely clinical collection while 30 smaller branch libraries in hospitals throughout the province are establishing basic, up-to-date collections. Financial support comes from an annual fee of $25.00 per doctor paid to the College of Physicians and Surgeons of British Columbia. Photoduplication, mail and telephone services meet many reference needs. Reading is vital to continuing medical education. The library works closely with the University of British Columbia''s Department of Continuing Medical Education to bring current medical knowledge to every doctor in British Columbia.     

The demographic and socioeconomic factors predictive for populations at high-risk for La Crosse virus infection in West Virginia

Although a large body of literature exists for the environmental risk factors for La Crosse virus (LACV) transmission, the demographic and socioeconomic risk factors for developing LACV infection have not been investigated. Therefore, this study investigated the demographic and socioeconomic risk factors for LACV infection in West Virginia from 2003 to 2007, using two forward stepwise discriminant analyses. The discriminant analyses were used to evaluate a number of demographic and socioeconomic factors for their ability to predict: 1) those census tracts with at least one reported case of LACV infection versus those census tracts with no reported cases of LACV infection and 2) to evaluate significantly high-risk clusters for LACV infection versus significantly low-risk clusters for LACV infection. In the first model, a high school education diploma or a general education diploma or less and a lower housing densitywere found to be predictive of those census tracts with at least one case of LACV infection. A high school or a general education diploma or less, lower housing density, and housing built in 1969 and earlier were all found to be predictive of those census tracts displaying high-risk clusters versus census tracts displaying low-risk clusters in the second model. The cluster discriminant analysis was found to be more predictive than the census tract discriminant analysis as indicated by the Eigenvalues, canonical correlation, and grouping accuracy. The results of this study indicate that socioeconomically disadvantaged populations are at the highest risk for LACV infection and should be a focus of LACV infection prevention efforts.     

医院图书馆建立学科馆员制度的制约因素探讨

目的：探讨在医院图书馆建立学科馆员制度和开展学科化服务的必要性与可行性。方法：通过上海市三级医院图书馆的人员、信息服务基础、数字化资源建设及学科馆员设置比例等的调研数据,分析其影响医院图书馆开展学科化服务的制约因素。结果：目前医院图书馆开展学科化服务存在：大环境、制度、评估指标、人员素质、和数字化资源建设六方面的主要制约因素。结论：学科馆员制度设置和学科化服务的开展是医院图书馆发展的方向和主流。通过对制约因素的揭示,在现有的条件和状态下,可通过制度保证、完善评估机制和标准、人员的继续教育和资源共建共享等措施,逐步提高医院图书馆学科馆员设置比例,以提升医院图书馆服务水平。     

Ecological characterization of bat species distributions in Michoacán, México, using a geographic information system

Aim To investigate the relationship between chiropteran species distributions and four fundamental environmental factors — temperature, precipitation, soil and vegetation — and to construct a species richness prediction map based on the environmental factors. Location The state of Michoacán, México. Methods Bat specimens collected during a 2‐year project were combined with museum specimens to form a dataset of over 3200 entries pertaining to 71 species of bats. Coordinates of the collection localities were recorded with GPS receivers or determined from maps. ArcView GIS was used to characterize the distribution of the species relative to the four environmental factors by projecting coordinates of the collection sites onto digitized maps of those factors. Correspondence analysis (CA) was used to evaluate the relationship between species distributions and the environmental factors. Results The CA results indicated that the order of importance of these factors is (from highest to lowest): temperature, vegetation, precipitation and soil. A predicted distribution map was constructed for each species of bat, based on the result of the CA analysis, using correspondences of each species to climate, vegetation and precipitation. Soil types were excluded from the prediction model because soil type does not appear to carry high predictive value for bat species in Michoacán. Distribution maps of the 71 bat species were then overlaid to generate a map of bat species richness for the state of Michoacán. Main conclusions Neither family membership nor feeding guild affiliation appear to play important roles in chiropteran species distributions in Michoacán. The bat species richness prediction map will be a useful tool for conservation works in the region.     

New tools for epidemiology: a space odyssey

Geographical Information Systems (GIS) facilitate access to epidemiological data through visualization and may be consulted for the development of mathematical models and analysis by spatial statistics. Variables such as land-cover, land-use, elevations, surface temperatures, rainfall etc. emanating from earth-observing satellites, complement GIS as this information allows the analysis of disease distribution based on environmental characteristics. The strength of this approach issues from the specific environmental requirements of those causative infectious agents, which depend on intermediate hosts for their transmission. The distribution of these diseases is restricted, both by the environmental requirements of their intermediate hosts/vectors and by the ambient temperature inside these hosts, which effectively govern the speed of maturation of the parasite. This paper discusses the current capabilities with regard to satellite data collection in terms of resolution (spatial, temporal and spectral) of the sensor instruments on board drawing attention to the utility of computer-based models of the Earth for epidemiological research. Virtual globes, available from Google and other commercial firms, are superior to conventional maps as they do not only show geographical and man-made features, but also allow instant import of data-sets of specific interest, e.g. environmental parameters, demographic information etc., from the Internet.     

Construction and characterization of a normalized yeast two-hybrid library derived from a human protein-coding clone collection

The nuclear yeast two-hybrid (Y2H) system is the most widely used technology for detecting interactions between proteins. A common approach is to screen specific test proteins (baits) against large compilations of randomly cloned proteins (prey libraries). For eukaryotic organisms, libraries have traditionally been generated using messenger RNA (mRNA) extracted from various tissues and cells. Here we present a library construction strategy made possible by ongoing public efforts to establish collections of full-length protein encoding clones. Our approach generates libraries that are essentially normalized and contain both randomly fragmented as well as full-length inserts. We refer to this type of protein-coding clone-derived library as random and full-length (RAFL) Y2H library. The library described here is based on clones from the Mammalian Gene Collection, but our strategy is compatible with the use of any protein-coding clone collection from any organism in any vector and does not require inserts to be devoid of untranslated regions. We tested our prototype human RAFL library against a set of baits that had previously been searched against multiple cDNA libraries. These Y2H searches yielded a combination of novel as well as expected interactions, indicating that the RAFL library constitutes a valuable complement to Y2H cDNA libraries.     

Geographical Information Systems and on-line GIServices for health data sharing and management

Integrating Geographical Information Systems (GIS) technology and public health experience may represent a solution for a better comprehension of spatial and temporal trends of phenomena. Useful applications can be built that support practitioners in their daily tasks, from risk assessment to prevention programmes. Also, making available data on the Internet through GIServices represents an important goal. Institutions and public health practitioners may benefit from the technological integration of GIS, the Web, handheld and mobile global positioning systems (GPS) devices. Expert users may be supported in deriving thematic maps which represent a spatial synthesis documentation starting from an analytic study expressed in terms of numbers and features. In this paper we show an example of an on-line data sharing and processing application, emphasizing ways GIS can provide added value to health research and management.     

New targeted approaches for the quantification of data‐independent acquisition mass spectrometry

The use of data‐independent acquisition (DIA) approaches for the reproducible and precise quantification of complex protein samples has increased in the last years. The protein information arising from DIA analysis is stored in digital protein maps (DIA maps) that can be interrogated in a targeted way by using ad hoc or publically available peptide spectral libraries generated on the same sample species as for the generation of the DIA maps. The restricted availability of certain difficult‐to‐obtain human tissues (i.e., brain) together with the caveats of using spectral libraries generated under variable experimental conditions limits the potential of DIA. Therefore, DIA workflows would benefit from high‐quality and extended spectral libraries that could be generated without the need of using valuable samples for library production. We describe here two new targeted approaches, using either classical data‐dependent acquisition repositories (not specifically built for DIA) or ad hoc mouse spectral libraries, which enable the profiling of human brain DIA data set. The comparison of our results to both the most extended publically available human spectral library and to a state‐of‐the‐art untargeted method supports the use of these new strategies to improve future DIA profiling efforts.     

基于规划支持系统的环境影响评价

如何在土地利用规划过程中考虑环境影响是土地利用规划中的一个难点问题.在定义活动、影响域、功能区、敏感度等概念的基础上,详细论述了土地利用规划支持系统(strate-gic tool for integrating environmental aspects in planning procedures,STEPP)将环境影响融入土地规划设计的过程.该系统是在ArcView GIS二次开发语言Avenue上开发的规划支持系统,可以方便规划相关人员在系统平台上进行信息交互,并在空间上直观、定量地表现规划过程中的环境影响及其变化.以荷兰埃德和维纳多市之间的城乡结合部为研究区进行案例研究,结果表明,该系统的定义和评价过程能较好地将环境影响融入到规划设计过程中,适时、直观地反映规划措施对环境的影响,方便了规划参与者参与规划过程,为决策者制定科学规划提供了依据.最后,对该系统如何应用于我国的规划环境影响评价提出了建议.     

Maxillofacial Injuries as Markers of Interpersonal Violence in Belo Horizonte-Brazil: Analysis of the Socio-Spatial Vulnerability of the Location of Victim’s Residences

The aim of the present study was to analyze the spatial pattern of cases of maxillofacial injuries caused by interpersonal violence, based on the location of the victim’s residence, and to investigate the existence of conditions of socio-spatial vulnerability in these areas. This is a cross-sectional study, using the data of victims attended in three emergency hospitals in Belo Horizonte-Brazil between January 2008 and December 2010. Based on the process of spatial signature, the socio-spatial condition of the victims was identified according to data from census tracts. The spatial distribution trends of the addresses of victims were analyzed using Kernel maps and Ripley’s K function. Multicriteria analysis was used to analyze the territorial insertion of victims, using a combination of variables to obtain the degree of socio-spatial vulnerability. The residences of the victims were distributed in an aggregated manner in urban areas, with a confidence level of 99%. The highest densities were found in areas of unfavorable socioeconomic conditions and, to a lesser extent, areas with worse residential and neighborhood infrastructure. Spatial clusters of households formed in slums with a significant level of socio-spatial vulnerability. Explanations of the living conditions in segregated urban areas and analysis of the concentration of more vulnerable populations should be a priority in the development of public health and safety policies.     

Collection of phage-peptide probes for HIV-1 immunodominant loop-epitope

Early diagnosis and prevention of human immunodeficiency virus type-1 (HIV-1) infection, which remains a serious public health threat, is inhibited by the lack of reagents that elicit antiviral responses in the immune system. To create mimotopes (peptide models of epitopes) of the most immunodominant epitope, CSGKLIC, that occurs as a loop on the envelope gp41 glycoprotein and is a key participant in infection, we used phage-display technology involving biopanning of large random libraries with IgG of HIV-1-infected patients. Under the conditions used, library screening with IgG from patient serum was directed to the CSGKLIC epitope. Three rounds of selection converted a 12 mer library of 10(9) sequences into a population in which up to 79% of phage bore a family of CxxKxxC sequences ("x" designates a non-epitope amino acid). Twenty-one phage clones displaying the most frequently selected peptides were obtained and were shown to display the principal structural (sequence and conformational), antigenic and immunogenic features of the HIV-1 immunodominant loop-epitope. Notably, when the mixture of the phage mimotopes was injected into mice, it induced 2- to 3-fold higher titers of antibody to the HIV-1 epitope than could be induced from individual mimotopes. The described approach could be applicable for accurately reproducing HIV-1 epitope structural and immunological patterns by generation of specialized viral epitope libraries for use in diagnosis and therapy.     

生物标本地理信息系统SpecimenMapping的设计和实现

针对生物多样性研究领域的需求与现有GIS平台的局限,运用GML和SVG等相关技术设计实现了一个基于XML标本地理信息系统———SpecimenMapping。该系统具有导入常见空间数据格式、投影坐标互相转化、管理个人标本数据、导入其他格式的标本数据、图形化显示标本地理信息、分布地生态因子分析和栖息地预测等功能,具有基于开放标准便于功能扩展、方便操作、针对性强等特点。     

Response of Demographic Rates of Tropical Trees to Light Availability: Can Position-Based Competition Indices Replace Information from Canopy Census Data?

For trees in tropical forests, competition for light is thought to be a central process that offers opportunities for niche differentiation through light gradient partitioning. In previous studies, a canopy index based on three-dimensional canopy census data has been shown to be a good predictor of species-specific demographic rates across the entire tree community on Barro Colorado Island, Panama, and has allowed quantifying between-species variation in light response. However, almost all other forest census plots lack data on the canopy structure. Hence, this study aims at assessing whether position-based neighborhood competition indices can replace information from canopy census data and produce similar estimates of the interspecific variation of light responses. We used inventory data from the census plot at Barro Colorado Island and calculated neighborhood competition indices with varying relative effects of the size and distance of neighboring trees. Among these indices, we selected the one that was most strongly correlated with the canopy index. We then compared outcomes of hierarchical Bayesian models for species-specific recruitment and growth rates including either the canopy index or the selected neighborhood competition index as predictor. Mean posterior estimates of light response parameters were highly correlated between models (r>0.85) and indicated that most species regenerate and grow better in higher light. Both light estimation approaches consistently found that the interspecific variation of light response was larger for recruitment than for growth rates. However, the classification of species into different groups of light response, e.g. weaker than linear (decelerating) vs. stronger than linear (accelerating) differed between approaches. These results imply that while the classification into light response groups might be biased when using neighborhood competition indices, they may be useful for determining species rankings and between-species variation of light response and therefore enable large comparative studies between different forest census plots.