The FunFOLD2 server for the prediction of protein-ligand interactions

The FunFOLD2 server is a new independent server that integrates our novel protein–ligand binding site and quality assessment protocols for the prediction of protein function (FN) from sequence via structure. Our guiding principles were, first, to provide a simple unified resource to make our function prediction software easily accessible to all via a simple web interface and, second, to produce integrated output for predictions that can be easily interpreted. The server provides a clean web interface so that results can be viewed on a single page and interpreted by non-experts at a glance. The output for the prediction is an image of the top predicted tertiary structure annotated to indicate putative ligand-binding site residues. The results page also includes a list of the most likely binding site residues and the types of predicted ligands and their frequencies in similar structures. The protein–ligand interactions can also be interactively visualized in 3D using the Jmol plug-in. The raw machine readable data are provided for developers, which comply with the Critical Assessment of Techniques for Protein Structure Prediction data standards for FN predictions. The FunFOLD2 webserver is freely available to all at the following web site: http://www.reading.ac.uk/bioinf/FunFOLD/FunFOLD_form_2_0.html.

Advanced Building Energy Data Visualization

Advanced Building Energy Data Visualization is a way to detect performance problems in commercialbuildings. By placing sensors in a building that collects data from example, air temperature and electricalpower, then makes it possible to calculate the data in Data Visualization software. This softwaregenerates visual diagrams so the building manager or building operator can see if for example thepower consumption is to high.A first step (before sensors are installed in a building) to see how the energy consumption is in abuilding can be to use a Benchmarking Tool. There is a number of Benchmarking Tools that is availablefor free on the Internet. Each tool have a bit different approach, but they all show how much energyconsumption there is in a building compared to other similar buildings.In this study a new web design for the benchmarking tool CalARCH has been developed. CalARCHis developed at the Berkeley Lab in Berkeley, California, USA. CalARCH uses data collected only frombuildings in California, and is only for comparing buildings in California with other similar buildingsin the state.Five different versions of the web site were made. Then a web survey was done to determine whichversion would be the best for CalARCH. The results showed that Version 5 and Version 3 was the best.Then a new version was made, based on these two versions. This study was made at the LawrenceBerkeley Laboratory.

Inkzine : Redesignandet av en tatuerings- och piercingcommunity

Our employer, Gaddad, is a tattoo and piercing community that was created in 2006 with the basic idea to make it easier for people to get in touch with the tattoo artists and piercers from all over Sweden. With the homepage’s popularity at 2009 they decided to expand with the news page Inkzine. 2011 they contacted us with a plan to expand the homepage to Europe and then merge their two sites under the name Inkzine.The goal of this project was to create design suggestions for Gaddad / Inkzine that both the administration and the current users liked and would consider implementing on the website. In order to evaluate the current design and our suggestions we decided to use two questionnaires . The first questionnaire evaluated the currentdesign to provide us with information for the redesign. The second questionnaire evaluated our new suggestions.With these questionnaire we also carried out an analysis to see the differences in opinions among the users and also between the administration and the users.We also investigated other community homepages, company homepages that had been internationalized, and other tattoo homepages. To see what others had done to adapt to the international market and to investigate the design of tattoo homepages.We also did literary studies in redesign and internationalization, in order to obtain a theoretical foundation for our work.The results of the investigation of other homepages showed that in order to perform an internationalization of a web site no major changes to the looks were necessary, only linguistic changes. The results of our questionnairesshowed that users had in most cases put the majority of their votes on

Grafisk profil till ett företag som tillverkar handgjorda textilprodukter av naturmaterial : Hur kan en hemsida kommunicera ett varumärke?

Målet med detta examensarbete var att skapa en grafisk profil till företaget Lyst Form AB som bedriver större delen av sin affärsverksamhet via en hemsida. Företaget säljer handgjorda kläder och accessoarer i lintyg. En teoretisk del i arbetet tar upp hur varumärket kan kommuniceras genom hemsidan. Den grafiska profilen utformades utifrån företagets identitet. Det är viktigt att företaget speglas på ett korrekt sätt. Ett företags identitet kan beskrivas som organisationens själ och den visas utåt i form av bland annat den grafiska profilen. Denna ses därför som en viktig identitetsbärare och den kan kallas för den visuella identiteten. En grafisk profil innehåller bland annat logotyp, profilfärger samt typografi. Företagets målgrupp ansågs vara en viktig del i hela processen eftersom de i slutändan ska tilltalas av den grafiska profilen. Först gjordes en grundlig undersökning och research av företaget för att få en god uppfattning av dess identitet. Även konkurrenterna granskades. En enkätundersökning gjordes för att kunna samla information utifrån målgruppens perspektiv. Denna informationsinsamling gav ett bra underlag och en riktlinje i framtagningen av den grafiska profilen.   Under designprocessens gång diskuterades de logotypförslag som togs fram med hjälp av en sammansatt fokusgrupp. Diskussionen var givande och var till stor nytta i designprocessen. Baserat på den grafiska profilen skapades en layout för hemsidan samt exempel på trycksaker för att visa hur den kan användas. En enklare grafisk manual skapades för att företaget ska kunna synas utåt på ett enhetligt sätt. En sista enkätundersökning gjordes för att se om målet uppnåtts. Resultatet visade att den nya framtagna grafiska profilen var en klar förbättring jämfört mot den nuvarande sett utifrån företagets identitet. I slutändan valde dock företaget en annan logotyp. Detta påvisar svårigheterna i processen att ta fram en grafisk profil. Alla delar i processen är viktiga och undersökningarna är bland annat en av de väsentliga delarna vilka bidrar med en större chans till ett bra slutresultat som tar hänsyn till både företagets och målgruppens åsikter.  

Development Of Climate Change Information Database And Its Use In Civic Consciousness Enlightenment

GCM outputs such as CMIP3 are available via network access to PCMDI web site. Meteorological researchers are familiar with the usage of the GCM data, but the most of researchers other than meteorology such as agriculture, civil engineering, etc., and general people are not familiar with the GCM. There are some difficulties to use GCM; 1) to download the enormous quantity of data, 2) to understand the GCM methodology, parameters and grids. In order to provide a quick access way to GCM, Climate Change Information Database has been developed. The purpose of the database is to bridge the users and meteorological specialists and to facilitate the understanding the climate changes. The resolution of the data is unified, and climate change amount or factors for each meteorological element are provided from the database. All data in the database are interpolated on the same 80km mesh. Available data are the present-future projections of 27 GCMs, 16 meteorological elements (precipitation, temperature, etc.), 3 emission scenarios (A1B, A2, B1). We showed the summary of this database to residents in Toyama prefecture and measured the effect of showing and grasped the image for the climate change by using the Internet questionary survey. The persons who feel a climate change at the present tend to feel the additional changes in the future. It is important to show the monitoring results of climate change for a citizen and promote the understanding for the climate change that had already occurred. It has been shown that general images for the climate change promote to understand the need of the mitigation, and that it is important to explain about the climate change that might occur in the future even if it did not occur at the present in order to have people recognize widely the need of the adaptation.

Antecedentes e conseqüências da confiança do consumidor final em trocas relacionadas com empresas de serviço : um estudo com o usuário de Internet Banking no Brasil

Este trabalho analisa um dos setores econômicos mais desenvolvidos do Brasil, a indústria financeira. Mais especificamente, as situações de trocas relacionais com os clientes finais (pessoas-físicas), tanto através dos contatos tradicionais (com empregados do banco) quanto através do comércio eletrônico (via internet). São descritos aspectos dos comportamentos dos clientes bancários em seus relacionamentos comerciais, notadamente como a confiança desses clientes em relação à empresa é construída e quais as suas conseqüências para o relacionamento com o Banco. Através de uma survey com 611 clientes usuários de Internet Banking do Banco do Brasil de todo o País, confirmou-se a hipótese de que os clientes realizam avaliações do serviço através de facetas múltiplas: o Web Site, os Empregados de Fronteira e as Políticas e Práticas Gerenciais. De maneira geral, a competência operacional e a benevolência de cada uma das facetas foram confirmadas como antecedentes (ou formadores) da confiança. Ratificou-se, também, que os clientes avaliam os serviços em dois contextos distintos: situações rotineiras e quando ocorrem problemas (a chamada recuperação de serviços). A hipótese central do trabalho de que, em situações de trocas relacionais, a confiança que os clientes têm em cada uma das facetas gera o comportamento de lealdade foi confirmada. A mediação dessa relação pelo valor que o cliente percebe na relação de troca também mostrou-se consistente. A maioria dos resultados obtidos apresentou-se conforme o esperado e de acordo com a revisão de literatura realizada, sendo que muitos deles foram similares, em termos de magnitude e significância estatística, a trabalhos anteriores sobre tema semelhante em outros países. A partir desses resultados, são apresentadas limitações do trabalho e sugestões para pesquisas futuras em relação aos aspectos teóricos, metodológicos e práticos abordados.

e-OP : uma nova prática comunicativa do orçamento participativo de Porto Alegre

Este estudo verifica a presença de novos padrões comunicacionais e novas práticas comunicativas na experiência do Orçamento Participativo de Porto Alegre na Internet e a sua relevância para a participação política. É um estudo descritivo e avaliativo elaborado a partir da decupagem do Web site do OP e de informações qualitativas e quantitativas retiradas da base de dados referente a participação pela Internet realizada em 2001, primeiro ano do e-OP. Descreve o conjunto de conteúdos e processos disponíveis no site e constrói um perfil inicial do participante online a partir de dados referentes à origem geográfica, às faixas de renda e ao sexo do participante. A análise destes dados orienta-se por uma tipologia de novos padrões comunicacionais e novas práticas comunicativas elaborada a partir da reflexão teórica realizada por esta pesquisa sobre a comunicação na Governança Eletrônica. A aplicação do modelo proposto identifica as potencialidades que asseguram a relevância e a peculiaridade do e-OP como uma nova prática comunicativa, mas também aponta os limites desta experiência, que tem registrado uma redução crescente no número de participantes a cada ano.

Uso do comércio eletrônico em órgãos do governo

O uso do comércio eletrônico está em expansão e tem fundamental relação com o rápido crescimento do uso da Internet e da Web. Apesar de estar se manifestando basicamente no âmbito das empresas privadas, o comércio eletrônico necessita de apoio governamental para que tenha um desenvolvimento consistente. Uma das formas de ação governamental para ajudar o desenvolvimento do comércio eletrônico é a sua utilização por parte dos próprios órgãos de governo. Este trabalho avalia o uso do comércio eletrônico em governos através de uma análise de Web sites municipais, estaduais e federais e também por uma investigação do Projeto de Governo Eletrônico no Governo do Estado de São Paulo.

Aplicação da abordagem WebQual na avaliação da qualidade de sites de busca no Brasil

Com o rápido crescimento da Internet, a quantidade de informações disponíveis tornou-se gigantesca, dificultando a busca pelo que realmente é essencial. Da mesma forma que vários esforços na divulgação de informações relevantes foram efetuados, sites de qualidade duvidosa também apareceram. Os "Sites de busca, apesar de ainda limitados, passaram a ter papel cada vez mais importante, e alguns deles são, hoje, líderes em número de acessos. A avaliação da qualidade de sites na Internet é, hoje, tópico de estudo de vários pesquisadores em todo o mundo. Vários modelos de avaliação existem, com focos que se alternam entre a avaliação dos aspectos tecnológicos e a medição da qualidade percebida pelo usuário ou consumidor. Nesta pesquisa, optou-se por analisar a aplicabilidade do instrumento "WebOual" - criado pelos professores Stuart Barnes (Victoria University of Wellington - Nova Zelândia) e Richard Vidgen (Universidade de Bath - Inglaterra) - o qual privilegia a avaliação da qualidade dos sites pesquisados pela ótica do usuário ou consumidor. Será aplicada a abordagem WebOual a três sites de busca internacionais que possuem versões localizadas em português. no Brasil: Altavista, Yahoo! e Google. Trata-se de utilização inédita da abordagem WebOual, anteriormente testada por seus criadores na avaliação de sites de Livrarias Virtuais, Universidades, Leilões ontine e sites WAP.

Viver na sombra: estudo sobre Lourdes Castro

O título da presente dissertação sobre Lourdes Castro – Viver na sombra – poderia parecer depreciativo, especialmente tratando-se de uma artista plástica com uma obra fundamentada na luz. No entanto, pretende-se que esta metáfora designe o resultado da investigação, na medida em que foram obtidas informações que têm merecido pouca atenção de especialistas ou de estudiosos em artes plásticas. Álbuns de família é um conjunto fundamental na obra de Lourdes Castro: iniciados na década de sessenta e em contínua atualização, constituem-se como arquivos de pesquisas e informações que Lourdes Castro tem realizado sobre sombras. Álbuns de família têm vivido na sombra daquela que é uma notável carreira artística de mais de quatro décadas, com projeção e visibilidade internacionais, premiada e reconhecida, quer nacional, quer internacionalmente, com obras de inegável valor no panorama das artes plásticas portuguesa e europeia. Na dissertação Viver na sombra apresenta-se uma pesquisa na qual se analisa a relação de citações literárias arquivadas em Álbuns de família com a obra física de Lourdes Castro e o prolongamento desta obra em textos literários de vários autores que nela encontraram inspiração. Um dos resultados mais relevantes da investigação realizada é a constatação de que na sombra têm também vivido algumas obras da artista, nomeadamente um conjunto de seis plexiglas datados de 1985, realizados por encomenda para a estação dos CTT da Avenida Zarco (no Funchal), que foram objecto de registo fotográfico e que são aqui, pela primeira vez, situados, identificados e catalogados. Em paralelo com o texto da dissertação Viver na sombra, elaborou-se um web-site (que se anexa ao presente volume em Cd-Rom) que inclui parte do conteúdo da presente investigação, realizado com o objectivo de ensaiar a possibilidade de – em futuros trabalhos – se vir a concretizar um potencial museu virtual da obra de Lourdes Castro.

Criteria for analysis of the structure of electronic scientific journals

This paper is the result of the Masters dissertation studying the role and history of scientific communication, especially the changes that have occurred after the appearance of electronic communication and computer networks. This study showed that hypertext systems are increasingly being used in the scientific and academic world in the production of electronic journals; this makes it possible for the user to rapidly access information in their area. However, these systems need to be improved to help the user during search and access to information. Both printed journals migrating to electronic media, and the exclusively electronic journals should present the current quality indicators. The attempt was made to discover whether characteristics related to printed journals are being maintained in their electronic counterparts. For this, a prototype model was developed to analyze the structure of electronic scientific journals; it composes 14 criteria expressing aspects of quality for these journals. It includes elements of Website Information Architecture and those already in place in printed scientific journals in order to ensure that basic functions - archiving and dissemination - are maintained in electronic publishing. Each criterion consists of variables, which measure the maintenance of these functions both in the migrating printed journals and the exclusively electronic ones. This prototype model was used to analyze Ciência da Informação On-line and DataGramaZero - Revista de Ciência da Informação. Results indicate that this model is able to find out if the basic functions of archiving and dissemination are being maintained in electronic journals. Therefore, its implementation is justified in electronic journals. The model can help librarians, authors, and users of electronic journals to identify quality journals, and assist editors in developing their projects. The material from the study may be included in the preservice and inservice education of Information Science professionals and to support editors of scientific journals.

Large-scale transcriptome analyses reveal new genetic marker candidates of head, neck, and thyroid cancer

A detailed genome mapping analysis of 213,636 expressed sequence tags (EST) derived from nontumor and tumor tissues of the oral cavity, larynx, pharynx, and thyroid was done. Transcripts matching known human genes were identified; potential new splice variants were flagged and subjected to manual curation, pointing to 788 putatively new alternative splicing isoforms, the majority (75%) being insertion events. A subset of 34 new splicing isoforms (5% of 788 events) was selected and 23 (68%) were confirmed by reverse transcription-PCR and DNA sequencing. Putative new genes were revealed, including six transcripts mapped to well-studied chromosomes such as 22, as well as transcripts that mapped to 253 intergenic regions. In addition, 2,251 noncoding intronic RNAs, eventually involved in transcriptional regulation, were found. A set of 250 candidate markers for loss of heterozygosis or gene amplification was selected by identifying transcripts that mapped to genomic regions previously known to be frequently amplified or deleted in head, neck, and thyroid tumors. Three of these markers were evaluated by quantitative reverse transcription-PCR in an independent set of individual samples. Along with detailed clinical data about tumor origin, the information reported here is now publicly available on a dedicated Web site as a resource for further biological investigation. This first in silico reconstruction of the head, neck, and thyroid transcriptomes points to a wealth of new candidate markers that can be used for future studies on the molecular basis of these tumors. Similar analysis is warranted for a number of other tumors for which large EST data sets are available.

Comparing the Teaching-Learning Process With and Without the Use of Computerized Technological Resources

Computerized technological resources have become essential in education, particularly for teaching topics that require the performance of specific tasks. These resources can effectively help the execution of such tasks and the teaching-learning process itself. After the development of a Web site on the topic of nursing staff scheduling, this study aimed at comparing the development of students involved in the teaching-learning process of the previously mentioned topic, with and without the use of computer technology. Two random groups of undergraduate nursing students from a public university in São Paulo state, Brazil, were organized: a case group (used the Web site) and a control group (did not use the Web site). Data were collected from 2003 to 2005 after approval by the Research Ethics Committee. Results showed no significant difference in motivation or knowledge acquisition. A similar performance for the two groups was also verified. Other aspects observed were difficulty in doing the nursing staff scheduling exercise and the students' acknowledgment of the topic's importance for their training and professional lives; easy access was considered to be a positive aspect for maintaining the Web site.

A snapshot of management practices and nutritional recommendations used by feedlot nutritionists in Brazil

Feedlot consulting nutritionists were invited to participate in a survey of feedlot nutritional and management practices in Brazil. Thirty-one nutritionists completed the survey on a Web site that was designed for collection of survey data. The survey consisted of 94 questions that included general information (n = 10); commodity information (n = 12); and questions about the use of coproducts (n = 5), roughage source and levels (n = 5), finishing diet adaptation methods (n = 7), supplements and micronutrients (n = 8), feed mixers (n = 6), feeding management (n = 3), cattle management and type of cattle fed (n = 16), formulation practices (n = 17), information resources used for nutritional recommendations (n = 2), and 2 additional questions. One final question addressed the primary challenges associated with applying nutritional recommendations in practice. The number of animals serviced yearly by each nutritionist averaged 121,682 (minimum = 2,000; maximum = 1,500,000; mode = 120,000; total = 3,163,750). Twenty-two respondents (71%) worked with feedlots that feed less than 5,000 animals/yr. Labor, along with availability and precision of equipment, seemed to be the main challenges for the nutritionists surveyed. Most of the nutritionists surveyed used TDN as the primary energy unit for formulation. More than 50% of the clients serviced by the 31 nutritionists did not manage feed bunks to control the quantity of feed offered per pen, and 36.6% fed cattle more than 4 times daily. The NRC (1996) and Journal of Animal Science were the most used sources of information by these nutritionists. Overall, general practices and nutritional recommendations provided by the 31 nutritionists surveyed were fairly consistent. Present data should aid in development of new research, future National Research Council models, and recommendations for Brazilian feeding systems in which Bos indicus cattle predominate.

The first electronic polytomous key to the world species of the subgenus Typhlodromus (Anthoseius) de Leon (Acari: Phytoseiidae)

This paper describes the first polytomous computerised identification key within the family Phytoseiidae. It applies to the females of the world species of the subgenus Typhlodromus (Anthoseius) de Leon. This group is one of the largest within the family Phytoseiidae and the sub-family Typhlodrominae, with nearly 350 species currently recognised worldwide. No identification tool of these species exists at the world level, which makes their identification very difficult and unsecure. Thirty five characters were used to characterise each of the 343 species. Among these characters, 14 are discrete and 21 are continuous. The polytomous key was constructed using the free software DELTA 1.04 (DEscription Language for TAxonomy) and is freely available at the web site: http://www1.montpellier.inra.fr/CBGP/phytoseiidae/anthoseiuskeypresentation.html. We hope that this work will open new perspectives for the identification of species of other genera (especially the largest ones, e.g. Neoseiulus, Euseius, Amblyseius) which contains more than 150 species and for which no key presently exists. We also expect that the present work will make the identification of the world species of Typhlodromus (Anthoseius) easier and more secure. Finally, we expect a contribution from the whole Phytoseiidae scientist community to improve subsequent versions of the key.