Alexander Gusev

Summary

Affiliation: Columbia University
Country: USA

Publications

  1. pmc Low-pass genome-wide sequencing and variant inference using identity-by-descent in an isolated human population
    A Gusev
    Department of Computer Science, Columbia University, New York, New York 10027, USA
    Genetics 190:679-89. 2012
  2. doi request reprint Highly scalable genotype phasing by entropy minimization
    Alexander Gusev
    Computer Science Department, Columbia University, New York, NY 10027, USA
    IEEE/ACM Trans Comput Biol Bioinform 5:252-61. 2008
  3. pmc Whole population, genome-wide mapping of hidden relatedness
    Alexander Gusev
    Department of Computer Science, Columbia University, New York, New York 10027, USA
    Genome Res 19:318-26. 2009
  4. pmc Increased power of mixed models facilitates association mapping of 10 loci for metabolic traits in an isolated population
    Eimear E Kenny
    Department of Computer Science, Columbia University, 505 Computer Science Building, 1214 Amsterdam Ave Mailcode 0401, New York, NY 10027 7003, USA
    Hum Mol Genet 20:827-39. 2011
  5. pmc DASH: a method for identical-by-descent haplotype mapping uncovers association with recent variation
    Alexander Gusev
    Department of Computer Science, Columbia University, New York, NY 10027, USA
    Am J Hum Genet 88:706-17. 2011
  6. pmc Systematic haplotype analysis resolves a complex plasma plant sterol locus on the Micronesian Island of Kosrae
    Eimear E Kenny
    Rockefeller University, New York, NY 10065, USA
    Proc Natl Acad Sci U S A 106:13886-91. 2009
  7. pmc Detecting identity by descent and homozygosity mapping in whole-exome sequencing data
    Zhong Zhuang
    Department of Computer Science, Columbia University, New York, NY, USA
    PLoS ONE 7:e47618. 2012
  8. pmc The architecture of long-range haplotypes shared within and across populations
    Alexander Gusev
    Department of Computer Science, Columbia University, New York, New York, USA
    Mol Biol Evol 29:473-86. 2012
  9. doi request reprint HLA type inference via haplotypes identical by descent
    Manu N Setty
    Computational Biology Program, Memorial Sloan Kettering Cancer Center, New York, New York, USA
    J Comput Biol 18:483-93. 2011
  10. ncbi request reprint An SVD-based grayscale image quality measure for local and global assessment
    Aleksandr Shnayderman
    Department of Computer and Information Science, Brooklyn College, City University of New York, Brooklyn, NY 11210, USA
    IEEE Trans Image Process 15:422-9. 2006

Collaborators

Detail Information

Publications10

  1. pmc Low-pass genome-wide sequencing and variant inference using identity-by-descent in an isolated human population
    A Gusev
    Department of Computer Science, Columbia University, New York, New York 10027, USA
    Genetics 190:679-89. 2012
    ..6% and 97.3%, respectively. This study presents whole-genome analysis of a homogenous isolate population with emphasis on optimal rare variant inference...
  2. doi request reprint Highly scalable genotype phasing by entropy minimization
    Alexander Gusev
    Computer Science Department, Columbia University, New York, NY 10027, USA
    IEEE/ACM Trans Comput Biol Bioinform 5:252-61. 2008
    ..The open source code implementation of the algorithm and a web interface are publicly available at http://dna.engr.uconn.edu/~software/ent/...
  3. pmc Whole population, genome-wide mapping of hidden relatedness
    Alexander Gusev
    Department of Computer Science, Columbia University, New York, New York 10027, USA
    Genome Res 19:318-26. 2009
    ..This finding is supported by concordance of detected deletions with other evidence from independent databases and statistical analyses of fluorescence intensity not used by GERMLINE...
  4. pmc Increased power of mixed models facilitates association mapping of 10 loci for metabolic traits in an isolated population
    Eimear E Kenny
    Department of Computer Science, Columbia University, 505 Computer Science Building, 1214 Amsterdam Ave Mailcode 0401, New York, NY 10027 7003, USA
    Hum Mol Genet 20:827-39. 2011
    ..Finally, we report a novel associations for height (rs17629022, P< 2.1 × 10⁻⁸)...
  5. pmc DASH: a method for identical-by-descent haplotype mapping uncovers association with recent variation
    Alexander Gusev
    Department of Computer Science, Columbia University, New York, NY 10027, USA
    Am J Hum Genet 88:706-17. 2011
    ..We have replicated one of these loci in an independent European cohort and identified putative structural changes in low-pass whole-genome sequence of the cluster carriers...
  6. pmc Systematic haplotype analysis resolves a complex plasma plant sterol locus on the Micronesian Island of Kosrae
    Eimear E Kenny
    Rockefeller University, New York, NY 10065, USA
    Proc Natl Acad Sci U S A 106:13886-91. 2009
    ..These findings exemplify the power of haplotype analysis for mapping mutations in isolated populations and specifically for dissecting effects of multiple variants of the same locus...
  7. pmc Detecting identity by descent and homozygosity mapping in whole-exome sequencing data
    Zhong Zhuang
    Department of Computer Science, Columbia University, New York, NY, USA
    PLoS ONE 7:e47618. 2012
    ..We hypothesize that the variable coverage and platform biases of exome capture account for this decreased accuracy and look toward whole genome sequencing data as a higher quality source for detecting population-wide IBD...
  8. pmc The architecture of long-range haplotypes shared within and across populations
    Alexander Gusev
    Department of Computer Science, Columbia University, New York, New York, USA
    Mol Biol Evol 29:473-86. 2012
    ..These are inconsistent with recent relatedness and suggest ancient common ancestry, with limited recombination between haplotypes...
  9. doi request reprint HLA type inference via haplotypes identical by descent
    Manu N Setty
    Computational Biology Program, Memorial Sloan Kettering Cancer Center, New York, New York, USA
    J Comput Biol 18:483-93. 2011
    ..We compare our method to a tag SNP-based approach, and demonstrate higher sensitivity and specificity. Our method demonstrates the power of using shared haplotype segments for large-scale imputation at the HLA locus...
  10. ncbi request reprint An SVD-based grayscale image quality measure for local and global assessment
    Aleksandr Shnayderman
    Department of Computer and Information Science, Brooklyn College, City University of New York, Brooklyn, NY 11210, USA
    IEEE Trans Image Process 15:422-9. 2006
    ..Its performance is compared with PSNR and two recent measures...