Water turbidity detection using ERTS-1 imagery

ERTS-1 images of two federal reservoirs in Kansas exhibit good correlation with suspended load. The major reservoirs in Kansas, as well as in other Great Plains states, are playing increasingly important roles in flood control, recreation, agriculture, and urban water supply. Satellite imagery may prove useful for acquiring timely low cost water quality data required for optimum management of these fresh water resources

ELAWD GROUT HOPPER MOCK-UP TESTING

A 10-inch READCO mixer is used for mixing the premix (45 (wt%) fly ash, 45 wt% slag, and 10 wt% portland cement) with salt solution in the Saltstone Production Facility (SPF). The Saltstone grout free falls into the grout hopper which feeds the suction line leading to the Watson SPX 100 duplex hose pump. The Watson SPX 100 pumps the grout through approximately 1500 feet of piping prior to being discharged into the Saltstone Disposal Facility (SDF) vaults. The existing grout hopper has been identified by the Saltstone Enhanced Low Activity Waste Disposal (ELAWD) project for re-design. The current nominal working volume of this hopper is 12 gallons and does not permit handling an inadvertent addition of excess dry feeds. Saltstone Engineering has proposed a new hopper tank that will have a nominal working volume of 300 gallons and is agitated with a mechanical agitator. The larger volume hopper is designed to handle variability in the output of the READCO mixer and process upsets without entering set back during processing. The objectives of this task involve scaling the proposed hopper design and testing the scaled hopper for the following processing issues: (1) The effect of agitation on radar measurement. Formation of a vortex may affect the ability to accurately measure the tank level. The agitator was run at varying speeds and with varying grout viscosities to determine what parameters cause vortex formation and whether measurement accuracy is affected. (2) A dry feeds over addition. Engineering Calculating X-ESR-Z-00017 1 showed that an additional 300 pounds of dry premix added to a 300 gallon working volume would lower the water to premix ratio (W/P) from the nominal 0.60 to 0.53 based on a Salt Waste Processing Facility (SWPF) salt simulant. A grout with a W/P of 0.53 represents the upper bound of grout rheology that could be processed at the facility. A scaled amount of dry feeds will be added into the hopper to verify that this is a recoverable situation. (3) The necessity of baffles in the hopper. The preference of the facility is not to have baffles in the hopper; however, if the initial testing indicates inadequate agitation or difficulties with the radar measurement, baffles will be tested

Thinking like a consumer: Linking aquatic basal metabolism and consumer dynamics

The increasing availability of high-frequency freshwater ecosystem metabolism data provides an opportunity to identify links between metabolic regimes, as gross primary production and ecosystem respiration patterns, and consumer energetics with the potential to improve our current understanding of consumer dynamics (e.g., population dynamics, community structure, trophic interactions). We describe a conceptual framework linking metabolic regimes of flowing waters with consumer community dynamics. We use this framework to identify three emerging research needs: (1) quantifying the linkage of metabolism and consumer production data via food web theory and carbon use efficiencies, (2) evaluating the roles of metabolic dynamics and other environmental regimes (e.g., hydrology, light) in consumer dynamics, and (3) determining the degree to which metabolic regimes influence the evolution of consumer traits and phenology. Addressing these needs will improve the understanding of consumer biomass and production patterns as metabolic regimes can be viewed as an emergent property of food webs

The Innate Immune Database (IIDB)

<p>Abstract</p> <p>Background</p> <p>As part of a National Institute of Allergy and Infectious Diseases funded collaborative project, we have performed over 150 microarray experiments measuring the response of C57/BL6 mouse bone marrow macrophages to toll-like receptor stimuli. These microarray expression profiles are available freely from our project web site <url>http://www.innateImmunity-systemsbiology.org</url>. Here, we report the development of a database of computationally predicted transcription factor binding sites and related genomic features for a set of over 2000 murine immune genes of interest. Our database, which includes microarray co-expression clusters and a host of web-based query, analysis and visualization facilities, is available freely via the internet. It provides a broad resource to the research community, and a stepping stone towards the delineation of the network of transcriptional regulatory interactions underlying the integrated response of macrophages to pathogens.</p> <p>Description</p> <p>We constructed a database indexed on genes and annotations of the immediate surrounding genomic regions. To facilitate both gene-specific and systems biology oriented research, our database provides the means to analyze individual genes or an entire genomic locus. Although our focus to-date has been on mammalian toll-like receptor signaling pathways, our database structure is not limited to this subject, and is intended to be broadly applicable to immunology. By focusing on selected immune-active genes, we were able to perform computationally intensive expression and sequence analyses that would currently be prohibitive if applied to the entire genome. Using six complementary computational algorithms and methodologies, we identified transcription factor binding sites based on the Position Weight Matrices available in TRANSFAC. For one example transcription factor (ATF3) for which experimental data is available, over 50% of our predicted binding sites coincide with genome-wide chromatin immnuopreciptation (ChIP-chip) results. Our database can be interrogated via a web interface. Genomic annotations and binding site predictions can be automatically viewed with a customized version of the Argo genome browser.</p> <p>Conclusion</p> <p>We present the Innate Immune Database (IIDB) as a community resource for immunologists interested in gene regulatory systems underlying innate responses to pathogens. The database website can be freely accessed at <url>http://db.systemsbiology.net/IIDB</url>.</p

Systems biology driven software design for the research enterprise

<p>Abstract</p> <p>Background</p> <p>In systems biology, and many other areas of research, there is a need for the interoperability of tools and data sources that were not originally designed to be integrated. Due to the interdisciplinary nature of systems biology, and its association with high throughput experimental platforms, there is an additional need to continually integrate new technologies. As scientists work in isolated groups, integration with other groups is rarely a consideration when building the required software tools.</p> <p>Results</p> <p>We illustrate an approach, through the discussion of a purpose built software architecture, which allows disparate groups to reuse tools and access data sources in a common manner. The architecture allows for: the rapid development of distributed applications; interoperability, so it can be used by a wide variety of developers and computational biologists; development using standard tools, so that it is easy to maintain and does not require a large development effort; extensibility, so that new technologies and data types can be incorporated; and non intrusive development, insofar as researchers need not to adhere to a pre-existing object model.</p> <p>Conclusion</p> <p>By using a relatively simple integration strategy, based upon a common identity system and dynamically discovered interoperable services, a light-weight software architecture can become the focal point through which scientists can both get access to and analyse the plethora of experimentally derived data.</p

Gene expression relationship between prostate cancer cells of Gleason 3, 4 and normal epithelial cells as revealed by cell type-specific transcriptomes

Background: Prostate cancer cells in primary tumors have been typed CD10(-)/CD13(-)/CD24(hi)/CD26(+)/CD38(lo)/CD44(-)/CD104(-). This CD phenotype suggests a lineage relationship between cancer cells and luminal cells. The Gleason grade of tumors is a descriptive of tumor glandular differentiation. Higher Gleason scores are associated with treatment failure. Methods: CD26(+) cancer cells were isolated from Gleason 3+3 (G3) and Gleason 4+4 (G4) tumors by cell sorting, and their gene expression or transcriptome was determined by Affymetrix DNA array analysis. Dataset analysis was used to determine gene expression similarities and differences between G3 and G4 as well as to prostate cancer cell lines and histologically normal prostate luminal cells. Results: The G3 and G4 transcriptomes were compared to those of prostatic cell types of non-cancer, which included luminal, basal, stromal fibromuscular, and endothelial. A principal components analysis of the various transcriptome datasets indicated a closer relationship between luminal and G3 than luminal and G4. Dataset comparison also showed that the cancer transcriptomes differed substantially from those of prostate cancer cell lines. Conclusions: Genes differentially expressed in cancer are potential biomarkers for cancer detection, and those differentially expressed between G3 and G4 are potential biomarkers for disease stratification given that G4 cancer is associated with poor outcomes. Differentially expressed genes likely contribute to the prostate cancer phenotype and constitute the signatures of these particular cancer cell types.National Institutes of Health (NIH)[CA111244]National Institutes of Health (NIH)[CA98699]National Institutes of Health (NIH)[CA85859]National Institutes of Health (NIH)[DK63630][P50-GMO-76547

Large-magnitude miocene extension in the central Mojave Desert: Implications for Paleozoic to Tertiary paleogeography and tectonics

This is the published version. Copyright 1990 American Geophysical Union. All Rights Reserved.The main Cenozoic extensional structure in the central Mojave Desert is the Waterman Hills detachment fault, which places brittlely deformed synorogenic Miocene rocks on ductilely and cataclastically deformed footwall rocks. New data are presented regarding the timing, distribution, magnitude, and significance of early Miocene extension in the area. The mylonitic fabric in the lower plate was formed at 23 Ma, based on a zircon U/Pb age from a synmylonitic intrusion. Upper plate strata consist of rhyolite flows overlain by sedimentary rocks that were apparently deposited during extensional faulting. These strata were tilted, folded, and intruded by synkinematic rhyolite plugs that are cut off at the detachment fault. Potassium metasomatism of the rhyolitic rocks is pervasive. Upper plate detrital sediment was derived from the rhyolitic rocks and from metamorphic and plutonic basement rocks not present in the area. The probable source of the exotic basement clasts is the Alvord Mountain area, presently located 35 km east-northeast of the Waterman Hills area. This source was probably much nearer to the Waterman Hills during deposition of the synorogenic deposits and has been subsequently shifted by extensional deformation. Distinctive Mesozoic plutonic rocks provide a possible tie between upper and lower plate rocks. Similar poikilitic gabbro bodies in the Goldstone area and the Iron Mountains suggest slip on the Waterman Hills detachment fault to be about 40–50 km. This is also consistent with other offset markers, such as the western edge of a Mesozoic dike swarm. When 15–20 km(?) of Tertiary extension is restored, Paleozoic eugeoclinal rocks are placed structurally above their miogeoclinal counterparts. Combined with the distribution of Triassic and Jurassic rocks, this implies post-Early Triassic and pre-Late Jurassic stacking of these lithologies

Greenhouse gas emissions from inland waters: A perspective and research agenda for the tropics and subtropics

peer reviewedStrong consensus indicates that inland waters emit globally significant quantities of greenhouse gases such as carbon dioxide, methane, and nitrous oxide. Tropical inland waters are often considered major contributors to higher greenhouse gas fluxes, yet accurate estimates of aquatic greenhouse gas fluxes are limited for the tropics. We provide a historical perspective on research carried out across low latitudes since the 1980s, synthesize current understanding of the sources and drivers of greenhouse gas emissions, and highlight priority research areas for future tropical inland water greenhouse gas research. We show that much of the focus has been on the humid tropics while the wet-dry, (semi)arid, and mountainous regions remain underrepresented in global datasets. Consistent and reliable greenhouse gas emission estimates will require (1) addressing the observational mismatch with new data from understudied ecoregions, (2) favoring direct and high-resolution carbon dioxide measurements over indirect estimates based on water chemistry parameters, (3) developing approaches that cross boundaries between ecosystem types and scales, and (4) sharing and publishing data more systematically