Project titles for:
Project titles for: 2007-09
- Comparison of software for Analysis of Molecular Marker Data
- In silico Prediction of miRNA in Rice Genome
- Web Tools for Bioinformatics
- In silico Structure Prediction of enzyme Arsenite methyltransferase
- Comparison of various software for QTL Analysis
- QSAR studies of Tuberculosis Inhibitors
- Determination of common transcription factor binding site in promoter region of abiotic stress resistance gene in rice
- SNP Mining in Rice Genome
- Protein Modelling of Betaine Aldehyde Dehydrogenase-2 in Rice
- Data Mining of Chemical Substructures for Biological Efficacy
- Plant Disease Database mined from PubMed
- Comparison of Protein Structure Prediction Methods
- Virtual High Throughput Screening for Influenza Virus Inhibitors
- Combinatorial Libraries for Screening against Tuberculosis Inhibitors
Many software programs for molecular population genetics studies have been developed for personal computers. The aim of present study is to compare the features of different freely available software for molecular marker data analysis. Software chosen for this study comprises: STRUCTURE, Arlequin, PopGene, PowerMarker, and Winboot. These particular programs were chosen because each can accommodate a variety of molecular marker types and perform many different types of analyses. The molecular data of 28 rice varieties at 42 loci obtain by using SSR markers was also used to compare the results given by software. Data was analyzed by all software one by one. Even though the results given by all the software were found to be in corollary but there was marked differences in their attributes like analysis each software offer, its graphical interface, type of data it supported and method it is based on. The study demonstrates that in all the studied software PowerMarker is the best for analyzing genetic relationship using codominant genotypic data, STRUCTURE is best for finding genetic structure and Arlequin is appropriate for haplotypic data. PopGene should be used only with closely realted species represented by codominant data and Winboot should also be used with codominant data only.