Suganthi Balasubramanian

Summary

Affiliation: Yale University
Country: USA

Publications

  1. pmc Comparative analysis of processed ribosomal protein pseudogenes in four mammalian genomes
    Suganthi Balasubramanian
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA
    Genome Biol 10:R2. 2009
  2. pmc Comprehensive analysis of amino acid and nucleotide composition in eukaryotic genomes, comparing genes and pseudogenes
    Nathaniel Echols
    Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, Box 208114, New Haven, CT 06520 8114, USA
    Nucleic Acids Res 30:2515-23. 2002
  3. ncbi request reprint SNPs on human chromosomes 21 and 22 -- analysis in terms of protein features and pseudogenes
    Suganthi Balasubramanian
    Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, New Haven, CT 06520 8114, USA
    Pharmacogenomics 3:393-402. 2002
  4. pmc Integrative annotation of variants from 1092 humans: application to cancer genomics
    Ekta Khurana
    Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA
    Science 342:1235587. 2013
  5. pmc The GENCODE pseudogene resource
    Baikang Pei
    Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA
    Genome Biol 13:R51. 2012
  6. pmc VAT: a computational framework to functionally annotate variants in personal genomes within a cloud-computing environment
    Lukas Habegger
    Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA
    Bioinformatics 28:2267-9. 2012
  7. pmc Sequence variation in G-protein-coupled receptors: analysis of single nucleotide polymorphisms
    Suganthi Balasubramanian
    Department of Molecular Biophysics and Biochemistry, Yale University 266 Whitney Avenue, New Haven, CT 06520 8114, USA
    Nucleic Acids Res 33:1710-21. 2005
  8. pmc Gene inactivation and its implications for annotation in the era of personal genomics
    Suganthi Balasubramanian
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    Genes Dev 25:1-10. 2011
  9. pmc Molecular fossils in the human genome: identification and analysis of the pseudogenes in chromosomes 21 and 22
    Paul M Harrison
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Genome Res 12:272-80. 2002

Detail Information

Publications9

  1. pmc Comparative analysis of processed ribosomal protein pseudogenes in four mammalian genomes
    Suganthi Balasubramanian
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA
    Genome Biol 10:R2. 2009
    ..The availability of genome sequences of numerous organisms allows comparative study of pseudogenes in syntenic regions. Conservation of pseudogenes suggests that they might have a functional role in some instances...
  2. pmc Comprehensive analysis of amino acid and nucleotide composition in eukaryotic genomes, comparing genes and pseudogenes
    Nathaniel Echols
    Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, Box 208114, New Haven, CT 06520 8114, USA
    Nucleic Acids Res 30:2515-23. 2002
    ..Our compositional analyses with the interactive viewer are available over the web at http://genecensus.org/pseudogene...
  3. ncbi request reprint SNPs on human chromosomes 21 and 22 -- analysis in terms of protein features and pseudogenes
    Suganthi Balasubramanian
    Department of Molecular Biophysics and Biochemistry, Yale University, 266 Whitney Avenue, New Haven, CT 06520 8114, USA
    Pharmacogenomics 3:393-402. 2002
    ..This could imply that protein structures, in general, can tolerate a wide degree of substitutions. Tables relating to our results are available from http://genecensus.org/pseudogene...
  4. pmc Integrative annotation of variants from 1092 humans: application to cancer genomics
    Ekta Khurana
    Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA
    Science 342:1235587. 2013
    ..g., certain deletions and enhancers). On the basis of these patterns, we developed a computational tool (FunSeq), whose application to ~90 cancer genomes reveals nearly a hundred candidate noncoding drivers. ..
  5. pmc The GENCODE pseudogene resource
    Baikang Pei
    Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA
    Genome Biol 13:R51. 2012
    ..However, recent evidence suggests that many of them might have some form of biological activity, and the possibility of functionality has increased interest in their accurate annotation and integration with functional genomics data...
  6. pmc VAT: a computational framework to functionally annotate variants in personal genomes within a cloud-computing environment
    Lukas Habegger
    Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06520, USA
    Bioinformatics 28:2267-9. 2012
    ..Finally, in order to enable on-demand access and to minimize unnecessary transfers of large data files, VAT can be run as a virtual machine in a cloud-computing environment...
  7. pmc Sequence variation in G-protein-coupled receptors: analysis of single nucleotide polymorphisms
    Suganthi Balasubramanian
    Department of Molecular Biophysics and Biochemistry, Yale University 266 Whitney Avenue, New Haven, CT 06520 8114, USA
    Nucleic Acids Res 33:1710-21. 2005
    ..Overall, we identify 115 SNPs in GPCRs from dbSNP that are likely to be associated with disease and thus are good candidates for genotyping in association studies...
  8. pmc Gene inactivation and its implications for annotation in the era of personal genomics
    Suganthi Balasubramanian
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA
    Genes Dev 25:1-10. 2011
    ..In addition, we call for the development of an expanded gene set to include human-specific genes that have arisen recently and are absent from the ancestral set...
  9. pmc Molecular fossils in the human genome: identification and analysis of the pseudogenes in chromosomes 21 and 22
    Paul M Harrison
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520 8114, USA
    Genome Res 12:272-80. 2002
    ..Finally, we find that chromosome 22 pseudogene population is dominated by immunoglobulin segments, which have a greater rate of disablement per amino acid than the other pseudogene populations and are also substantially more diverged...