Composition and risk assessment of roasted pyrite ash from fertiliser production.

Pyrite ash is a residue from the roasting of pyrite ores to obtain sulphuric acid used in the fertiliser industry and its production is widely extended worldwide. The mismanagement of this waste may result in environmental and health damages due to its physico-chemical characteristics. The main objective of this study was to examine the physico-chemical and mineralogical composition of roasted pyrite ash from an abandoned fertiliser company, and to evaluate the environmental risk caused by the wind and water dispersion of metals posed by this waste. In order to achieve these objectives, a sequential extraction procedure and a physical fractionation into six size fractions: >100, 100-50, 50-20, 20-10, 10-2.5 and < 2.5 µm were applied. Results showed that pyrite ash is composed mainly of iron-oxides such as hematite (46%) and secondary minerals as anglesite and shows high concentrations of Pb (7464 mg kg-1), Zn (2663 mg kg-1) and Cu (585 mg kg-1). The highest Risk Assessment Code (RAC) values were found for Cd, Pb and Zn, bound to the more labile fractions. Conversely, Pb showed the lowest water solubility due to the covering effect provided by a coating of anglesite in the pyrite ash surface. Most of the metals were associated to both the coarsest (>100 µm) and the finest (2.5-10 µm) fractions, although none represented an environmental risk according to the ecological risk index results. However, 30% of the metals were bound to the respirable fraction (≤100 µm) posing a potential risk for human health and a high potential dispersion by wind to the surrounding areas.

PATIKAweb: a Web interface for analyzing biological pathways through advanced querying and visualization.

Patikaweb provides a Web interface for retrieving and analyzing biological pathways in the Patika database, which contains data integrated from various prominent public pathway databases. It features a user-friendly interface, dynamic visualization and automated layout, advanced graph-theoretic queries for extracting biologically important phenomena, local persistence capability and exporting facilities to various pathway exchange formats.

An ontology for collaborative construction and analysis of cellular pathways.

MOTIVATION: As the scientific curiosity in genome studies shifts toward identification of functions of the genomes in large scale, data produced about cellular processes at molecular level has been accumulating with an accelerating rate. In this regard, it is essential to be able to store, integrate, access and analyze this data effectively with the help of software tools. Clearly this requires a strong ontology that is intuitive, comprehensive and uncomplicated. RESULTS: We define an ontology for an intuitive, comprehensive and uncomplicated representation of cellular events. The ontology presented here enables integration of fragmented or incomplete pathway information via collaboration, and supports manipulation of the stored data. In addition, it facilitates concurrent modifications to the data while maintaining its validity and consistency. Furthermore, novel structures for representation of multiple levels of abstraction for pathways and homologies is provided. Lastly, our ontology supports efficient querying of large amounts of data. We have also developed a software tool named pathway analysis tool for integration and knowledge acquisition (PATIKA) providing an integrated, multi-user environment for visualizing and manipulating network of cellular events. PATIKA implements the basics of our ontology.

PATIKA: an integrated visual environment for collaborative construction and analysis of cellular pathways.

MOTIVATION: Availability of the sequences of entire genomes shifts the scientific curiosity towards the identification of function of the genomes in large scale as in genome studies. In the near future, data produced about cellular processes at molecular level will accumulate with an accelerating rate as a result of proteomics studies. In this regard, it is essential to develop tools for storing, integrating, accessing, and analyzing this data effectively. RESULTS: We define an ontology for a comprehensive representation of cellular events. The ontology presented here enables integration of fragmented or incomplete pathway information and supports manipulation and incorporation of the stored data, as well as multiple levels of abstraction. Based on this ontology, we present the architecture of an integrated environment named Patika (Pathway Analysis Tool for Integration and Knowledge Acquisition). Patika is composed of a server-side, scalable, object-oriented database and client-side editors to provide an integrated, multi-user environment for visualizing and manipulating network of cellular events. This tool features automated pathway layout, functional computation support, advanced querying and a user-friendly graphical interface. We expect that Patika will be a valuable tool for rapid knowledge acquisition, microarray generated large-scale data interpretation, disease gene identification, and drug development. AVAILABILITY: A prototype of Patika is available upon request from the authors.