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| Eugene A. Rosa; Thomas Dietz. |
| A wide range of ecological studies affirms the cumulative damage to ecosystem capital and services around the globe. They also point to the overwhelming role that anthropogenic or human drivers play in global ecological damage. The MAHB is intended to combine what we know about human drivers of environmental threats with what the social sciences know about changing human behavior and institutions. A variety of social sciences have taken up the first task of identifying the key human activities—at both the local, cumulative level and at the systemic level—most responsible for global environmental change. Considerable progress has been made in our understanding of land use and land cover change, of vulnerability, resilience, and... |
| Tipo: Presentation |
Palavras-chave: Ecology. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/5251/version/1 |
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| Cecilia Arighi. |
| The Protein Ontology (PRO) is designed as a formal and well-principled Open Biomedical Ontologies (OBO) Foundry ontology for proteins. The components of PRO extend from the classification of proteins, on the basis of evolutionary relationships at the homeomorphic level, to the representation of the multiple protein forms of a gene, such as those resulting from alternative splicing, cleavage and/or post-translational modifications. As an ontology, PRO differs from a database in that it provides description about the protein types and their relationships. In this way PRO can be integrated with or cross-referenced by other ontologies and/or databases. The representation of specific protein entities in PRO allows precise definition of objects in pathways,... |
| Tipo: Presentation |
Palavras-chave: Molecular Cell Biology; Bioinformatics. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3169/version/1 |
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| Sebastian Polak. |
| Cardiotoxicity assessment is a compulsory element of the drug development process required by drug agencies including the FDA and EMA. The risk of fatal ventricular arrhythmia triggered by drugs is the rationale for such requirements. Over the last two decades prolongation of QT interval has been responsible for the withdrawal of several drugs from the market and extensive black box labeling restrictions. Although there are a number of mechanisms by which drugs may lead to QT prolongation, inhibition of the potassium channels encoded by the hERG gene has been a cause in many cases. Thus, it is not surprising that interaction with the hERG channel has become a major pharmacological safety concern. It can be reliably assessed with use of in silico realized... |
| Tipo: Presentation |
Palavras-chave: Pharmacology; Bioinformatics. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/5900/version/1 |
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| Alan Kuo; Igor Grigoriev. |
| Pyrosequencing technologies such as 454/Roche and Solexa/Illumina vastly lower the cost of nucleotide sequencing compared to the traditional Sanger method, and thus promise to greatly expand the number of sequenced eukaryotic genomes. However, the new technologies also bring new challenges such as shorter reads and new kinds and higher rates of sequencing errors, which complicate genome assembly and gene prediction. At JGI we are deploying 454 technology for the sequencing and assembly of ever-larger eukaryotic genomes. Here we describe our first whole-genome annotation of a purely 454 sequenced fungal genome that is larger than a yeast (>30 Mbp). The pezizomycotine (filamentous ascomycote) _Aspergillus carbonarius_ belongs to the _Aspergillus_... |
| Tipo: Presentation |
Palavras-chave: Genetics & Genomics; Bioinformatics; Earth & Environment. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3191/version/1 |
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| Abhay Krishna; Ajit Narayanan. |
| Genome-scale molecular networks, including gene pathways, gene regulatory networks and protein interactions, are central to the investigation of the nascent disciplines of systems biology and bio-complexity. Dissecting these genome-scale molecular networks in its all-possible manifestations is paramount in our quest for a genotype-input phenotype-output application which will also take environment-genome interactions into account.

Machine learning approaches are now increasingly being used for reverse engineering such networks. Our work stresses the importance of a system approach in biological research and how artificial neural networks are at the forefront of Artificial Intelligence techniques that are increasingly... |
| Tipo: Presentation |
Palavras-chave: Ecology; Bioinformatics. |
| Ano: 2008 |
URL: http://precedings.nature.com/documents/2003/version/1 |
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| Nicolas Le Novere. |
| The Systems Biology Graphical Notation (SBGN) is an effort to standardize the graphical notation used in maps of biochemical and cellular processes studied in systems biology. SBGN is made up of three orthogonal languages, representing different visions of biological systems. Each language defines a comprehensive set of symbols with precise semantics, together with detailed syntactic rules how maps are to be interpreted. In this presentation I recapitulated why SBGN was developed, and discuss the current state of the Entity Relationships language. I then describe the coming evolutions and the pending issues. |
| Tipo: Presentation |
Palavras-chave: Bioinformatics. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/4963/version/1 |
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| I. C. Baianu. |
| There is an urgent need for the early detection of diseases such as Alzheimer’s (AD) and Cancers in order to enable their successful treatment. Cancer is the second major cause of death after Heart Disease, and AD is the third major cause of death with major consequences for the society.
Three major Nuclear Medicine techniques that are established for diagnostic and research purposes are: Positron Emission Tomography (PET) CAT/CT and Nuclear Magnetic Resonance Imaging (NMRI/MRI). These nuclear medicine techniques are discussed together with their clinical and research applications to early diagnosis of Alzheimer's Disease (AD) and cancers. Novel approaches to early detection and modeling of AD and cancers are then... |
| Tipo: Presentation |
Palavras-chave: Biotechnology; Cancer; Chemistry; Genetics & Genomics; Neuroscience; Pharmacology; Bioinformatics. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/6196/version/1 |
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| Alexandru Todor; Adrian Paschke; Stephan Heineke. |
| Our Chemical e-Science Information Cloud (ChemCloud) – a Semantic Web based eScience infrastructure – integrates and automates a multitude of databases, tools and services in the domain of chemistry, pharmacy and bio-chemistry available at the Fachinformationszentrum Chemie (FIZ Chemie), at the Freie Universitaet Berlin (FUB), and on the public Web. Based on the approach of the W3C Linked Open Data initiative and the W3C Semantic Web technologies for ontologies and rules it semantically links and integrates knowledge from our W3C HCLS knowledge base hosted at the FUB, our multi-domain knowledge base DBpedia (Deutschland) implemented at FUB, which is extracted from Wikipedia (De) providing a public semantic resource for chemistry, and... |
| Tipo: Presentation |
Palavras-chave: Chemistry. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/5649/version/1 |
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| Kaberi Kar Gupta; Madhusudan V. Katti. |
| *Background/Question/Methods* 

In our increasingly urban world, indigenous knowledge of local ecology is declining rapidly, because survival in industrialized urban environments does not depend on knowing the details of local flora, fauna, or phenologies. While traditional ecological knowledge has been documented since 1980s, this is has been largely descriptive, e.g., ethnobotany of sacred groves, cultivation practices, or use of medicinal plants. Until recently, conservation biologists and managers of protected areas have followed western models of conservation that exclude local people and often abandon local ecological knowledge. However, many scientific studies of local ecosystems would not have been possible without... |
| Tipo: Presentation |
Palavras-chave: Ecology. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3601/version/1 |
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| Björn Brembs. |
| Learning about the consequences of our actions (operant learning) is one of the major ways in which we learn to understand the world we live in. Despite our recent advances in the neurobiology of learning and memory, this “learning-by-doing” has largely withstood neurobiological scrutiny. This proposal aims to elucidate the molecular and neurobiological mechanisms of spontaneous behavioral choice and how decision-making is modulated by the consequences of such actions. This research will be done in a genetically amenable model system, the fruit fly Drosophila. We will use state-of-the-art genetic and behavioral techniques to identify the circuitry and molecular processes involved in generating spontaneous turning behavior and its... |
| Tipo: Presentation |
Palavras-chave: Neuroscience. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/2926/version/1 |
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| Bradly Alicea. |
| When the word "systems" is used in systems biology, it invokes a variety of assumptions about what defines the subject under investigation, which in turn can lead to divergent research outcomes. We will take the position that systems are defined by their potential organizing and "control" mechanisms, which distinguishes complex, living systems from a primordial soup. This will be accomplished by defining and investigating three interesting control motifs in biological systems: dominoes and clocks, futile cycles, and complex feedforward regulation. Additional mechanisms that combine feedback and feedforward mechanisms will also be briefly elaborated upon. Throughout these examples, our focus will be on the connection... |
| Tipo: Presentation |
Palavras-chave: Molecular Cell Biology; Bioinformatics. |
| Ano: 2011 |
URL: http://precedings.nature.com/documents/6369/version/2 |
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| Russ B. Altman. |
| This is a powerpoint presentation made initially at the Cold Spring Harbor meeting on Pharmacogenomics, November 2006. It discusses the PharmGKB (http://www.pharmgkb.org/) and how we are building a pipeline for annotation of knowledge. In particular, we are focusing on pathway knowledge, "Very important Pharmacogene" annotations, and curation of the pharmacogenomics literature. We are building an ontology-based system to capture and aggregate knowledge, for use by our curators. |
| Tipo: Presentation |
Palavras-chave: Biotechnology; Genetics & Genomics; Pharmacology. |
| Ano: 2006 |
URL: http://precedings.nature.com/documents/8/version/1 |
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| Alan M. Dewar. |
| As soon as humans adopted agriculture as the principle means of feeding themselves, they have had an effect on the environment, and by implication, also on biodiversity. It is not possible to grow crops in an intensive manner without doing so, but it is necessary to do so to feed the population. In this respect, the use of herbicides or other weed control practices (e.g. hand-hoeing) inevitably will have an effect on biodiversity, whether those methods are used in conventional, organic or genetically modified herbicide-tolerant (GMHT) crops. 

Recent literature from the UK following the Farm Scale Evaluations (FSE) of the environmental impact of GMHT oilseed rape, maize and sugar beet suggests that the recommended weed... |
| Tipo: Presentation |
Palavras-chave: Earth & Environment; Plant Biology. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/4462/version/1 |
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| Jason A. Hubbart. |
| More than half of the world’s population now lives in urbanized ecosystems. Continued human population growth over the next several decades will place unprecedented demand on urban water resources, resulting in escalating water quality and supply challenges. Urbanization exacts significant impacts on stream ecosystems including increased magnitude and frequency of peak flows, altered microclimates and reduced biodiversity. Increased impervious surface area in urban settings reduces or eliminates soil infiltration and increases the amount of stormwater runoff delivered to stream channels. Stormwater routing networks in urban areas channelize runoff, reducing stormwater transit time. Stormwater flow serves as an important transport mechanism for... |
| Tipo: Presentation |
Palavras-chave: Ecology; Earth & Environment; Plant Biology. |
| Ano: 2009 |
URL: http://precedings.nature.com/documents/3603/version/1 |
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| Paul Wise. |
| Dr. Paul Wise began with a brief overview of policy formation, specifically that related to child development. He then delved into the changing taxonomy of disease and its implications for policy. He concluded by stressing the need for frameworks for collective action to reframe policy in terms of gene-environment interactions.

To watch Dr. Wise’s presentation, please see the Panel 4 "Google Video posting.":http://video.google.com/videoplay?docid=-1375553372274016362&hl=en Panel 4 also features presentations by Dr. Richard Sharp of the Cleveland Clinic on "Disease Advocacy and Contested Environments" and by Professor Sara Shostak of Brandeis University on... |
| Tipo: Presentation |
Palavras-chave: Genetics & Genomics. |
| Ano: 2008 |
URL: http://precedings.nature.com/documents/2650/version/1 |
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| David Croft. |
| REACTOME is an open-source, open access, manually curated, peer-reviewed and highly reliable pathway database. A new website is currently in preparation, which includes tools for visualising pathway diagrams and analyzing user-supplied data in a pathway context. Reactome provides facilities for exporting its content in BioPax and SBML formats. |
| Tipo: Presentation |
Palavras-chave: Bioinformatics. |
| Ano: 2010 |
URL: http://precedings.nature.com/documents/5025/version/1 |
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| Registros recuperados: 1.470 | |
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