Comparison of three targeted enrichment strategies on the Solid sequencing platform

PLoS ONE

Volumn 6, Issue 4, 2011, Pages

  Hedges, Dale J ^a   Guettouche, Toumy ^a   Yang, Shan ^b   Bademci, Guney ^a   Diaz, Ashley ^a   Andersen, Ashley ^a   Hulme, William F ^a   Linker, Sara ^a   Mehta, Arpit ^a   Edwards, Yvonne J K ^a   Beecham, Gary W ^a   Martin, Eden R ^a   Pericak Vance, Margaret A ^a   Zuchner, Stephan ^a   Vance, Jeffery M ^a   Gilbert, John R ^a  

^a UNIVERSITY OF MIAMI MILLER SCHOOL OF MEDICINE   (United States)

^b Life Technologies   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALLELE; ARTICLE; BIOINFORMATICS; CONTROLLED STUDY; CORRELATION ANALYSIS; EXON; FEMALE; GENE LIBRARY; GENE SEQUENCE; GENETIC ANALYSIS; GENOTYPE; HUMAN; HUMAN GENOME; INTERMETHOD COMPARISON; MALE; NUCLEIC ACID HYBRIDIZATION; POLYMERASE CHAIN REACTION; BIOLOGY; CHEMISTRY; COMPARATIVE STUDY; COMPUTER PROGRAM; DNA SEQUENCE; HETEROZYGOTE; METHODOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; REPRODUCIBILITY;

PRIMER DNA;

ALLELES; BASE SEQUENCE; COMPUTATIONAL BIOLOGY; DNA PRIMERS; FEMALE; GENOTYPE; HETEROZYGOTE; HUMANS; MALE; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; POLYMERASE CHAIN REACTION; REPRODUCIBILITY OF RESULTS; SEQUENCE ANALYSIS, DNA; SOFTWARE;

EID: 79955708249     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0018595     Document Type: Article

References (12)

1. Summerer D, (2009) Enabling technologies of genomic-scale sequence enrichment for targeted high-throughput sequencing. Genomics 94 (6): 363-368.
2. Bainbridge MN, Wang M, Burgess DL, Kovar C, Rodesch MJ, et al. (2010) Whole exome capture in solution with 3 gbp of data. Genome Biol 11 (6): R62.
3. Hodges E, Rooks M, Xuan Z, Bhattacharjee A, Benjamin Gordon D, et al. (2009) Hybrid selection of discrete genomic intervals on custom-designed microarrays for massively parallel sequencing. Nat Protoc 4 (6): 960-974.
4. Gnirke A, Melnikov A, Maguire J, Rogov P, LeProust EM, et al. (2009) Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing. Nat Biotechnol 27 (2): 182-189.
5. Hodges E, Xuan Z, Balija V, Kramer M, Molla MN, et al. (2007) Genome-wide in situ exon capture for selective resequencing. Nat Genet 39 (12): 1522-1527.
6. Tewhey R, Warner JB, Nakano M, Libby B, Medkova M, et al. (2009) Microdroplet-based PCR enrichment for large-scale targeted sequencing. Nat Biotechnol 27 (11): 1025-1031.
7. Lind C, Ferriola D, Mackiewicz K, Heron S, Rogers M, et al. (2010) Next-generation sequencing: The solution for high-resolution, unambiguous human leukocyte antigen typing. Hum Immunol 2010 Oct;71 (10): 1033-42.
8. Melum E, May S, Schilhabel MB, Thomsen I, Karlsen TH, et al. (2010) SNP discovery performance of two second-generation sequencing platforms in the NOD2 gene region. Hum Mutat 31 (7): 875-885.
9. Harismendy O, Ng PC, Strausberg RL, Wang X, Stockwell TB, et al. (2009) Evaluation of next generation sequencing platforms for population targeted sequencing studies. Genome Biol 10 (3): R32.
10. Teer JK, Bonnycastle LL, Chines PS, Hansen NF, Aoyama N, et al. (2010) Systematic comparison of three genomic enrichment methods for massively parallel DNA sequencing. Genome Res 20 (10): 1420-1431.
11. Rosenblatt M, (1956) Remarks on some nonparametric estimates of a density function. Ann Math Statist Volume 27, Number 3 pp. 832-837.
12. Parzen E, (1962) On estimation of a probability density function and mode. Ann Math Statist Volume 33, Number 3 pp. 1065-1076.