Guoying Liu

Summary

Affiliation: Affymetrix Inc
Country: USA

Publications

  1. pmc Description of the data from the Collaborative Study on the Genetics of Alcoholism (COGA) and single-nucleotide polymorphism genotyping for Genetic Analysis Workshop 14
    Howard J Edenberg
    Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, 635 Barnhill Drive, Indianapolis, IN, USA
    BMC Genet 6:S2. 2005
  2. pmc NetAffx: Affymetrix probesets and annotations
    Guoying Liu
    Department of Bioinformatics, Affymetrix, Inc, 6550 Vallejo Street, Suite 100, Emeryville, CA 94608, USA
    Nucleic Acids Res 31:82-6. 2003
  3. ncbi request reprint Genotyping over 100,000 SNPs on a pair of oligonucleotide arrays
    Hajime Matsuzaki
    Affymetrix, Inc, 3380 Central Expressway, Santa Clara, California 95051, USA
    Nat Methods 1:109-11. 2004
  4. ncbi request reprint Dynamic model based algorithms for screening and genotyping over 100 K SNPs on oligonucleotide microarrays
    Xiaojun Di
    Affymetrix, Inc, Santa Clara, CA 95051, USA
    Bioinformatics 21:1958-63. 2005
  5. pmc CARAT: a novel method for allelic detection of DNA copy number changes using high density oligonucleotide arrays
    Jing Huang
    Affymetrix, Inc, 3420 Central Expressway, Santa Clara, CA 95051, USA
    BMC Bioinformatics 7:83. 2006
  6. ncbi request reprint Algorithms for large-scale genotyping microarrays
    Wei mn Liu
    Affymetrix, Inc, 3380 Central Expressway, Santa Clara, CA 95051, USA
    Bioinformatics 19:2397-403. 2003
  7. ncbi request reprint NetAffx Gene Ontology Mining Tool: a visual approach for microarray data analysis
    Jill Cheng
    Affymetrix Corporation, Bioinformatics, 6550 Vallejo Street, Suite 100, Emeryville, CA 94608, USA
    Bioinformatics 20:1462-3. 2004
  8. pmc Improved detection of global copy number variation using high density, non-polymorphic oligonucleotide probes
    Fan Shen
    Affymetrix, Inc, 3420 Central Expressway Santa Clara, CA 95051, USA
    BMC Genet 9:27. 2008
  9. pmc Parallel genotyping of over 10,000 SNPs using a one-primer assay on a high-density oligonucleotide array
    Hajime Matsuzaki
    Affymetrix, Inc, Santa Clara, California 95051, USA
    Genome Res 14:414-25. 2004
  10. pmc MARA: a novel approach for highly multiplexed locus-specific SNP genotyping using high-density DNA oligonucleotide arrays
    Michael H Shapero
    Affymetrix, Inc, Genotyping Research, 3380 Central Expressway, Santa Clara, CA 95051, USA
    Nucleic Acids Res 32:e181. 2004

Collaborators

Detail Information

Publications17

  1. pmc Description of the data from the Collaborative Study on the Genetics of Alcoholism (COGA) and single-nucleotide polymorphism genotyping for Genetic Analysis Workshop 14
    Howard J Edenberg
    Department of Biochemistry and Molecular Biology, Indiana University School of Medicine, 635 Barnhill Drive, Indianapolis, IN, USA
    BMC Genet 6:S2. 2005
    ..CIDR, Affymetrix, and Illumina provided single-nucleotide polymorphism genotyping of a large subset of the COGA subjects. This article briefly describes the dataset that was provided...
  2. pmc NetAffx: Affymetrix probesets and annotations
    Guoying Liu
    Department of Bioinformatics, Affymetrix, Inc, 6550 Vallejo Street, Suite 100, Emeryville, CA 94608, USA
    Nucleic Acids Res 31:82-6. 2003
    ....
  3. ncbi request reprint Genotyping over 100,000 SNPs on a pair of oligonucleotide arrays
    Hajime Matsuzaki
    Affymetrix, Inc, 3380 Central Expressway, Santa Clara, California 95051, USA
    Nat Methods 1:109-11. 2004
    ..7%. Average intermarker distance is 23.6 kb, and 92% of the genome is within 100 kb of a SNP marker. Average heterozygosity is 0.30, with 105,511 SNPs having minor allele frequencies >5%...
  4. ncbi request reprint Dynamic model based algorithms for screening and genotyping over 100 K SNPs on oligonucleotide microarrays
    Xiaojun Di
    Affymetrix, Inc, Santa Clara, CA 95051, USA
    Bioinformatics 21:1958-63. 2005
    ....
  5. pmc CARAT: a novel method for allelic detection of DNA copy number changes using high density oligonucleotide arrays
    Jing Huang
    Affymetrix, Inc, 3420 Central Expressway, Santa Clara, CA 95051, USA
    BMC Bioinformatics 7:83. 2006
    ..The ability to accurately detect these changes is central to understanding how they impact the biology of the cell...
  6. ncbi request reprint Algorithms for large-scale genotyping microarrays
    Wei mn Liu
    Affymetrix, Inc, 3380 Central Expressway, Santa Clara, CA 95051, USA
    Bioinformatics 19:2397-403. 2003
    ..High density oligonucleotide microarrays provide the possibility for such analysis with reasonable cost. Such analysis requires accurate, reliable methods for feature extraction, classification, statistical modeling and filtering...
  7. ncbi request reprint NetAffx Gene Ontology Mining Tool: a visual approach for microarray data analysis
    Jill Cheng
    Affymetrix Corporation, Bioinformatics, 6550 Vallejo Street, Suite 100, Emeryville, CA 94608, USA
    Bioinformatics 20:1462-3. 2004
    ..The GO Mining Tool provides visualization combining biological annotation with expression data, encompassing thousands of genes in one interactive view...
  8. pmc Improved detection of global copy number variation using high density, non-polymorphic oligonucleotide probes
    Fan Shen
    Affymetrix, Inc, 3420 Central Expressway Santa Clara, CA 95051, USA
    BMC Genet 9:27. 2008
    ....
  9. pmc Parallel genotyping of over 10,000 SNPs using a one-primer assay on a high-density oligonucleotide array
    Hajime Matsuzaki
    Affymetrix, Inc, Santa Clara, California 95051, USA
    Genome Res 14:414-25. 2004
    ....
  10. pmc MARA: a novel approach for highly multiplexed locus-specific SNP genotyping using high-density DNA oligonucleotide arrays
    Michael H Shapero
    Affymetrix, Inc, Genotyping Research, 3380 Central Expressway, Santa Clara, CA 95051, USA
    Nucleic Acids Res 32:e181. 2004
    ....
  11. pmc Whole genome DNA copy number changes identified by high density oligonucleotide arrays
    Jing Huang
    Affymetrix, Inc, 3380 Central Expressway, Santa Clara, CA 95051, USA
    Hum Genomics 1:287-99. 2004
    ..With mean and median inter-SNP euchromatin distances of 244 kilobases (kb) and 119 kb, respectively, this method affords a resolution that is not easily achievable with non-oligonucleotide-based experimental approaches...
  12. pmc A genome-wide linkage analysis of alcoholism on microsatellite and single-nucleotide polymorphism data, using alcohol dependence phenotypes and electroencephalogram measures
    Chun Zhang
    Genomics Collaborations Department, Affymetrix, Santa Clara, CA 95051, USA
    BMC Genet 6:S17. 2005
    ..Adding the microsatellite data to the combined SNP dataset improved the results only marginally. The results indicated that SNPs outperform microsatellites with the densest marker sets performing the best...
  13. ncbi request reprint Large-scale genotyping of complex DNA
    Giulia C Kennedy
    Affymetrix, 3380 Central Expressway, Santa Clara, California 95051, USA
    Nat Biotechnol 21:1233-7. 2003
    ..We also determined the ancestral allele for 8,386 SNPs by genotyping chimpanzee and gorilla DNA. WGSA is highly scaleable and enables the creation of ultrahigh density SNP maps for use in genetic studies...
  14. ncbi request reprint GPCR-GRAPA-LIB--a refined library of hidden Markov Models for annotating GPCRs
    Ron Shigeta
    Affymetrix Corporation, Bioinformatics, 6550 Vallejo Street, Suite 100 Emeryville, CA 94608, USA
    Bioinformatics 19:667-8. 2003
    ..Protein sequences are applied to the models with the GRAPA curve-based selection criteria. RefSeq sequences for Homo sapiens, Drosophila melanogaster, and Caenorhabditis elegans have been annotated using this approach...
  15. pmc Whole-genome scan, in a complex disease, using 11,245 single-nucleotide polymorphisms: comparison with microsatellites
    Sally John
    University of Manchester, Manchester, United Kingdom
    Am J Hum Genet 75:54-64. 2004
    ..The high SNP density allows loci to be defined more precisely and provides a partial scaffold for association studies, substantially reducing the resource requirement for gene-mapping studies...
  16. ncbi request reprint A whole genome long-range haplotype (WGLRH) test for detecting imprints of positive selection in human populations
    Chun Zhang
    Affymetrix Inc, 3380 Central Expressway, Santa Clara, CA 95051, USA
    Bioinformatics 22:2122-8. 2006
    ..With the availability of large-scale genotype data, efficient approaches for an unbiased whole genome scan are becoming necessary...
  17. pmc Genome-wide detection of human copy number variations using high-density DNA oligonucleotide arrays
    Daisuke Komura
    Research Center for Advanced Science and Technology, The University of Tokyo, Meguro, Tokyo 153 8904, Japan
    Genome Res 16:1575-84. 2006
    ....