Integration of Environmental Information Systems

2008 S.C. Water Resources Conference - Addressing Water Challenges Facing the State and Regio

An Open, Large-Scale, Collaborative Effort to Estimate the Reproducibility of Psychological Science

Reproducibility is a defining feature of science. However, because of strong incentives for innovation and weak incentives for confirmation, direct replication is rarely practiced or published. The Reproducibility Project is an open, large-scale, collaborative effort to systematically examine the rate and predictors of reproducibility in psychological science. So far, 72 volunteer researchers from 41 institutions have organized to openly and transparently replicate studies published in three prominent psychological journals in 2008. Multiple methods will be used to evaluate the findings, calculate an empirical rate of replication, and investigate factors that predict reproducibility. Whatever the result, a better understanding of reproducibility will ultimately improve confidence in scientific methodology and findings

The landscape of somatic copy-number alteration across human cancers

available in PMC 2010 August 18.A powerful way to discover key genes with causal roles in oncogenesis is to identify genomic regions that undergo frequent alteration in human cancers. Here we present high-resolution analyses of somatic copy-number alterations (SCNAs) from 3,131 cancer specimens, belonging largely to 26 histological types. We identify 158 regions of focal SCNA that are altered at significant frequency across several cancer types, of which 122 cannot be explained by the presence of a known cancer target gene located within these regions. Several gene families are enriched among these regions of focal SCNA, including the BCL2 family of apoptosis regulators and the NF-κΒ pathway. We show that cancer cells containing amplifications surrounding the MCL1 and BCL2L1 anti-apoptotic genes depend on the expression of these genes for survival. Finally, we demonstrate that a large majority of SCNAs identified in individual cancer types are present in several cancer types.National Institutes of Health (U.S.) (Dana-Farber/Harvard Cancer Center and Pacific Northwest Prostate Cancer SPOREs, P50CA90578)National Institutes of Health (U.S.) (Dana-Farber/Harvard Cancer Center and Pacific Northwest Prostate Cancer SPOREs, R01CA109038))National Institutes of Health (U.S.) (Dana-Farber/Harvard Cancer Center and Pacific Northwest Prostate Cancer SPOREs, R01CA109467)National Institutes of Health (U.S.) (Dana-Farber/Harvard Cancer Center and Pacific Northwest Prostate Cancer SPOREs, P01CA085859)National Institutes of Health (U.S.) (Dana-Farber/Harvard Cancer Center and Pacific Northwest Prostate Cancer SPOREs, P01CA 098101)National Institutes of Health (U.S.) (Dana-Farber/Harvard Cancer Center and Pacific Northwest Prostate Cancer SPOREs, K08CA122833

Marine-life Data and Analysis Team (MDAT) graphics

Figures to support communication and broader understanding of data products developed by the Marine-life Data and Analysis Team (MDAT)

Results of efforts by the Convention on Biological Diversity to describe ecologically or biologically significant marine areas : EBSAs in the High Seas

In 2004, Parties to the Convention on Biological Diversity (CBD) addressed a United Nations (UN) call for area-based planning, including for marine-protected areas that resulted in a global effort to describe ecologically or biologically significant marine areas (EBSAs). We summarized the results, assessed their consistency, and evaluated the process developed by the Secretariat of the CBD to engage countries and experts in 9 regional workshops held from 2011 to 2014. Experts from 92 countries and 79 regional or international bodies participated. They considered 250 million km of the world's ocean area (two-thirds of the total). The 204 areas they examined in detail differed widely in area (from 5.5 km to 11.1 million km). Despite the initial focus of the CBD process on areas outside national jurisdiction, only 31 of the areas examined were solely outside national jurisdiction. Thirty-five extended into national jurisdictions, 137 were solely within national jurisdictions, and 28 included the jurisdictions of more than 1 country (1 area lacked precise boundaries). Data were sufficient to rank 88-99% of the areas relative to each of the 7 criteria for EBSAs agreed to previously by Parties to the CBD. The naturalness criterion ranked high for a smaller percentage of the EBSAs (31%) than other criteria (51-70%), indicating the difficulty in finding relatively undisturbed areas in the ocean. The highly participatory nature of the workshops, including easy and consistent access to the relevant information facilitated by 2 technical teams, contributed to the workshop participants success in identifying areas that could be ranked relative to most criteria and areas that extend across jurisdictional boundaries. The formal recognition of workshop results by the Conference of Parties to the CBD resulted in these 204 areas being identified as EBSAs by the 196 Parties. They represent the only suite of marine areas recognized by the international community for their greater importance for biodiversity it is their importance for biodiversity itself not conservation as process explicitly excluded management issues than their surroundings. This comes at a critical juncture in negotiations at the UN that will consider developing a new implementation agreement under UN Convention of the Law of the Sea to support the conservation and sustainable use of marine biological diversity beyond areas of national jurisdiction. The EBSA description process is a good example of how to bring the international community together to build a shared understanding of which ocean areas are particularly valuable to biodiversity

Methods for identifying spatially referenced conservation needs and opportunities

Protected area coverage is expanding rapidly in response to threats such as habitat degradation, resource overexploitation, and climate change. Given limited resources, conservation scientists have developed systematic methods for identifying where it is most efficient to protect biodiversity. To improve the outcomes of protected areas, planners have also sought to incorporate non-ecological data into protected area design, including data on conservation opportunity. Our study expands this literature using expert elicitation, participatory mapping, and a case study of the Southern Ocean to identify areas of conservation need and opportunity. We consider the spatial variation between need and opportunity, examine how socioeconomic and political factors influence the selection of areas, and investigate barriers to reaching consensus and establishing marine protected areas along the Western Antarctic Peninsula. We found that, while experts readily identified areas of conservation need and opportunity, most did not easily distinguish between the different types of opportunity proposed in the literature (existing, potential, and fleeting). Geographically, there were significant areas of overlap between need and opportunity, but areas of need were more restricted and specific, whereas areas of opportunity were more expansive and general. Biophysical and socioeconomic factors were most important in motivating the selection of areas of opportunity, followed by geopolitical and then scientific factors. Our approach to data collection and planning can provide insights into tradeoffs between ecological needs and opportunities for taking action, and therefore aid in identifying and reducing barriers to designating effective marine protected areas

Biologically Important Areas II for cetaceans within U.S. and adjacent waters - Updates and the application of a new scoring system

Building on earlier work identifying Biologically Important Areas (BIAs) for cetaceans in U.S. waters (BIA I), we describe the methodology and structured expert elicitation principles used in the “BIA II” effort to update existing BIAs, identify and delineate new BIAs, and score BIAs for 25 cetacean species, stocks, or populations in seven U.S. regions. BIAs represent areas and times in which cetaceans are known to concentrate for activities related to reproduction, feeding, and migration, as well as known ranges of small and resident populations. In this BIA II effort, regional cetacean experts identified the full extent of any BIAs in or adjacent to U.S. waters, based on scientific research, Indigenous knowledge, local knowledge, and community science. The new BIA scoring and labeling system improves the utility and interpretability of the BIAs by designating an overall Importance Score that considers both (1) the intensity and characteristics underlying an area’s identification as a BIA; and (2) the quantity, quality, and type of information, and associated uncertainties upon which the BIA delineation and scoring depend. Each BIA is also scored for boundary uncertainty and spatiotemporal variability (dynamic, ephemeral, or static). BIAs are region-, species-, and time-specific, and may be hierarchically structured where detailed information is available to support different scores across a BIA. BIAs are compilations of the best available science and have no inherent regulatory authority. BIAs may be used by international, federal, state, local, or Tribal entities and the public to support planning and marine mammal impact assessments, and to inform the development of conservation and mitigation measures, where appropriate under existing authorities. Information provided online for each BIA includes: (1) a BIA map; (2) BIA scores and label; (3) a metadata table detailing the data, assumptions, and logic used to delineate, score, and label the BIA; and (4) a list of references used in the assessment. Regional manuscripts present maps and scores for the BIAs, by region, and narratives summarizing the rationale and information upon which several representative BIAs are based. We conclude with a comparison of BIA II to similar international efforts and recommendations for improving future BIA assessments

OBIS-SEAMAP The World Data Center for Marine Mammal, Sea Bird, and Sea Turtle Distributions

The science needed to understand highly migratory marine mammal, sea bird, and sea turtle species is not adequately addressed by individual data collections developed for a single region or single time period. These data must be brought together into a common, global map based on a coherent, interoperable, and openly accessible information system. This need was clearly articulated by the National Oceanographic Partnership Program (NOPP) and the Alfred P. Sloan Foundation when they co-sponsored a new effort to directly address this issue in 2002. The result is OBIS-SEAMAP: the world data-center for marine mammal, sea bird, and sea turtle information. OBIS-SEAMAP brings together georeferenced distribution, abundance, and telemetry data with tools to query and assess these species in a dynamic and searchable environment. In a second round of NOPP support that began in 2007, the National Science Foundation is helping expand this effort into new technologies and data types. To date, the OBIS-SEAMAP information system includes more than 2.2 million observation records from over 230 data sets spanning 73 years (1935-2008), and growth of this data archive is accelerating. All of these data are provided by a growing international network of individual and institutional data providers