Milos Pajic

Towards a database for genotype-phenotype association research: mining data from encyclopaedia

To associate phenotypic characteristics of an organism to molecules encoded by its genome, there is a need for well-structured genotype and phenotype data. We use a novel method for extracting data on phenotype and genotype characteristics of microorganisms from text. As a resource, we use an encyclopedia of microorganisms, which holds phenotypic and genotypic data and create a structured, flexible data resource, which can be exported to a range of database formats, containing genotype and phenotype data for 2412 species and 873 genera of microbes. This data source has great potential as a resource for future biological research on genotype-phenotype associations. In this paper, we focus on describing the structure and content of the resulting database and on evaluating the method used for extracting the data. We conclude that the resulting database can be used as a reliable complementary resource for research into genotype-phenotype association.

Information extraction from semi-structured resources: a two-phase finite state transducers approach

The paper presents a new method for extracting information from semi-structured resources, based on finite state transducers. The method has two clearly distinguished phases. The first phase - pre-processing phase - strongly relies upon the analysis of the document structure and it is used for locating records of data in the text. The second phase is based on the finite state transducers created for extracting information. The transducers can be modified so that preferred efficiency is achieved and can be reused for extracting information from other pre-processed documents. We conclude that even untagged text can be treated as a semi-structured one, providing its structure can be successfully pre-processed. As a result, we extracted data from free form encyclopedia text and created a fully structured database with genotype and phenotype characteristics of the organisms.

Research results of long-term use of new line of machines and tools for land surface and depth arrangement

This paper presents the results of the application of the machines and tools for new technologies in plant production for two years of research. The comparative analysis of the influence of new technologies and new types of machines was done, and also the effect of conventional tillage systems on several agricultural crops (sunflower, commercial maize and wheat). During the experiment, we analyzed the effects of application of new line of machines to: physical properties of soil, morphological features of crops, use of energy and yield, and we also analyzed the economic aspects of the application. On the control plots, a conventional tillage system was simultaneously applied for comparative analysis of the previously mentioned factors. Trials were conducted on production plots of Maize Research Institute “Zemun Polje” in Krnjesevci from October 2008 until July 2010.