Suresh B. Mudunuri

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MOTIVATION Microsatellites, also known as simple sequence repeats, are the tandem repeats of nucleotide motifs of the size 1-6 bp found in every genome known so far. Their importance in genomes is well known. Microsatellites are associated with various disease genes, have been used as molecular markers in linkage analysis and DNA fingerprinting studies, and(More)
tRFs, 14 to 32 nt long single-stranded RNA derived from mature or precursor tRNAs, are a recently discovered class of small RNA that have been found to be present in diverse organisms at read counts comparable to miRNAs. Currently, there is a debate about their biogenesis and function. This is the first meta-analysis of tRFs. Analysis of more than 50 short(More)
Microsatellites are a unique type of repeat patterns found in genome sequences of all known organisms including bacteria and viruses. These repeats play an important role in genome evolution, are associated with various diseases, have been used as molecular markers in DNA Fingerprinting, Population Genetics etc. Various bioinformatics tools have been(More)
Organelle genomes evolve rapidly as compared with nuclear genomes and have been widely used for developing microsatellites or simple sequence repeats (SSRs) markers for delineating phylogenomics. In our previous reports, we have established the largest repository of organelle SSRs, ChloroMitoSSRDB, which provides access to 2161 organelle genomes (1982(More)
We have created tRFdb, the first database of transfer RNA fragments (tRFs), available at http://genome.bioch.virginia.edu/trfdb/. With over 100 small RNA libraries analyzed, the database currently contains the sequences and read counts of the three classes of tRFs for eight species: R. sphaeroides, S. pombe, D. melanogaster, C. elegans, Xenopus, zebra fish,(More)
Microsatellites or simple sequence repeats (SSRs) are repetitive stretches of nucleotides (A, T, G, C) that are distributed either as single base pair stretches or as a combination of two- to six-nucleotides units that are non-randomly distributed within coding and in non-coding regions of the genome. ChloroMitoSSRDB is a complete curated web-oriented(More)
  • Gopala Krishna Murthy Nookala, Nagaraju Orsu, Bharath Kumar Pottumuthu, Suresh B. Mudunuri
  • 2013
Classification algorithms of data mining have been successfully applied in the recent years to predict cancer based on the gene expression data. Micro-array is a powerful diagnostic tool that can generate handful information of gene expression of all the human genes in a cell at once. Various classification algorithms can be applied on such micro-array data(More)
Microsatellites are ubiquitous short tandem repeats found in all known genomes and are known to play a very important role in various studies and fields including DNA fingerprinting, paternity studies, evolutionary studies, virulence and adaptation of certain bacteria and viruses etc. Due to the sequencing of several genomes and the availability of enormous(More)
The MICdb is a comprehensive relational database of perfect microsatellites extracted from completely sequenced and annotated genomes of bacteria and archaea. The current version MICdb3.0 is an updated and revised version of MICdb2.0. As compared with the previous version MICdb2.0, the current release is significantly improved in terms of much larger(More)
Mitochondria also known as the powerhouses of the cells have their own DNA sequence and exhibit sequence similarity with bacterial genomes. Microsatellites are a special class of DNA repeats that are found to be helpful to understand evolution, diseases, and phylogeny are widely used in various applications including DNA Fingerprinting, Forensics, Paternity(More)