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Robert D. Foreman - One of the best experts on this subject based on the ideXlab platform.

Viswanadha S. Raju - One of the best experts on this subject based on the ideXlab platform.

  • next generation sequencing ngs database for tandem repeats with multiple pattern 2 shaft multicore string matching
    Genomics data, 2016
    Co-Authors: Chinta Someswara Rao, Viswanadha S. Raju
    Abstract:

    Next generation sequencing (NGS) technologies have been rapidly applied in biomedical and biological research in recent years. To provide the comprehensive NGS resource for the research, in this paper , we have considered 10 loci/codi/repeats TAGA, TCAT, GAAT, AGAT, AGAA, GATA, TATC, CTTT, TCTG and TCTA. Then we developed the NGS Tandem Repeat Database (TandemRepeatDB) for all the chromosomes of Homo sapiens, Callithrix jacchus, Chlorocebus sabaeus, Gorilla gorilla, Macaca fascicularis, Macaca mulatta, Nomascus leucogenys, Pan troglodytes, Papio anubis and Pongo abelii genome data sets for all those locis. We find the successive occurence frequency for all the above 10 SSR (simple sequence repeats) in the above genome data sets on a chromosome-by-chromosome basis with multiple pattern 2° shaft multicore string matching.

  • Next generation sequencing (NGS) database for tandem repeats with multiple pattern 2°-shaft multicore string matching
    Elsevier, 2016
    Co-Authors: Chinta Someswara Rao, Viswanadha S. Raju
    Abstract:

    Next generation sequencing (NGS) technologies have been rapidly applied in biomedical and biological research in recent years. To provide the comprehensive NGS resource for the research, in this paper , we have considered 10 loci/codi/repeats TAGA, TCAT, GAAT, AGAT, AGAA, GATA, TATC, CTTT, TCTG and TCTA. Then we developed the NGS Tandem Repeat Database (TandemRepeatDB) for all the chromosomes of Homo sapiens, Callithrix jacchus, Chlorocebus sabaeus, Gorilla gorilla, Macaca fascicularis, Macaca mulatta, Nomascus leucogenys, Pan troglodytes, Papio anubis and Pongo abelii genome data sets for all those locis. We find the successive occurence frequency for all the above 10 SSR (simple sequence repeats) in the above genome data sets on a chromosome-by-chromosome basis with multiple pattern 2° shaft multicore string matching. Keywords: NGS, SSR, TandemRepeatDB, Genome, String matching, chromosome

Margaret J Chandler - One of the best experts on this subject based on the ideXlab platform.

Betsy Ferguson - One of the best experts on this subject based on the ideXlab platform.

  • single nucleotide polymorphisms snps are highly conserved in rhesus Macaca mulatta and cynomolgus Macaca fascicularis macaques
    BMC Genomics, 2007
    Co-Authors: Summer L Street, Randall C Kyes, Richard Grant, Betsy Ferguson
    Abstract:

    Background Macaca fascicularis (cynomolgus or longtail macaques) is the most commonly used non-human primate in biomedical research. Little is known about the genomic variation in cynomolgus macaques or how the sequence variants compare to those of the well-studied related species, Macaca mulatta (rhesus macaque). Previously we identified single nucleotide polymorphisms (SNPs) in portions of 94 rhesus macaque genes and reported that Indian and Chinese rhesus had largely different SNPs. Here we identify SNPs from some of the same genomic regions of cynomolgus macaques (from Indochina, Indonesia, Mauritius and the Philippines) and compare them to the SNPs found in rhesus.

C E Chapman - One of the best experts on this subject based on the ideXlab platform.