Project titles for:
Project titles for: 2006-08
- Detection of putative miRNA sequences in rice genome
- QSAR Studies on Tuberculosis Inhibitors
- Eigenvalue analysis and its applications in Bioinformatics
- Parallel Implementation of DOCK Algorithm
- Comparative Analysis of Protein Classification Methods
- Identification of Neuraminidase inhibitors of Influenza virus
- Identification of Transcription factor binding sites in yeast
- Restriction site analysis of Rice genome
- Docking Studies on Tuberculosis Inhibitors
- Determination of sequence homology in promoter region for abiotic stress responsive genes in rice
- SNP mining in Chromosome no.8 of rice
- Annotation of EST Sequences present on Chromosome no. 1, 4 & 8 of Rice
- Function Prediction for genes near BAD-2 locus on Chromosome no. 8 of Rice
- Computational Prediction of Putative miRNA Candidates in Malarial Parasite Genome
- Multimedia database of fungal diseases in Rice and Wheat
- GePre: A Gene Prediction Tool
- SEALI: A Sequence Alignment Tool
- Tannase Structure Prediction
- Algorithms on PAM and BLOSUM Matrices
Expressed Sequence Tags are the short single pass reads obtained from the ends of a cDNA clone. They are currently the most widely sequenced moiety in case of nucleotide sequences. ESTs provide a cost effective way to gene indexing, gene discovery and the characterization of alternatively spliced forms. They provide a snapshot of the transcriptome at a particular moment. Gaining information from the ESTs is not a trivial task. The information of what gene EST belongs to or is it coming from a new gene can be easily done by clustering the EST sequences and assembling them into contigs indexing them such that each contig contains the information for only one gene. Wu and colleagues obtained 3' end sequences from >20,000 clones of their rice cDNA libraries. 3' end sequences tend to be the least redundant and thus the most likely to give gene-specific markers. From these, they selected 8440 unique sequences as templates for polymerase chain reaction primers. After screening, they retained 6713 sequences that amplified a single band of the predicted size from both rice genomic DNA and the pooled YAC library. Subsequently, they screened pools from the YAC library to identify the YAC clones containing the EST markers. Approximately 1500 ESTs identified YACs not placed on the physical map previously. Finally, a centromerespecific primer was used to identify YACs covering 11 of the 12 rice centromeres. In the end, an additional 6591 EST markers were placed on the physical map. This high marker density will be important in identifying BACs that fill the remaining gaps in the tiling path and in anchoring unplaced BAC contigs (a contig is a contiguous set of overlapping clones or sequences).