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Results: 1 to 20 of 182

1.

Automated degenerate PCR primer design for high-throughput sequencing improves efficiency of viral sequencing.

Li K, Shrivastava S, Brownley A, Katzel D, Bera J, Nguyen AT, Thovarai V, Halpin R, Stockwell TB.

Virol J. 2012 Nov 6;9:261. doi: 10.1186/1743-422X-9-261.

PMID:
23131097
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Novel computational methods for increasing PCR primer design effectiveness in directed sequencing.

Li K, Brownley A, Stockwell TB, Beeson K, McIntosh TC, Busam D, Ferriera S, Murphy S, Levy S.

BMC Bioinformatics. 2008 Apr 11;9:191. doi: 10.1186/1471-2105-9-191.

PMID:
18405373
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

BatchPrimer3: a high throughput web application for PCR and sequencing primer design.

You FM, Huo N, Gu YQ, Luo MC, Ma Y, Hane D, Lazo GR, Dvorak J, Anderson OD.

BMC Bioinformatics. 2008 May 29;9:253. doi: 10.1186/1471-2105-9-253.

PMID:
18510760
[PubMed - indexed for MEDLINE]
Free PMC Article
4.
5.

Multiplex degenerate primer design for targeted whole genome amplification of many viral genomes.

Gardner SN, Jaing CJ, Elsheikh MM, Peña J, Hysom DA, Borucki MK.

Adv Bioinformatics. 2014;2014:101894. doi: 10.1155/2014/101894. Epub 2014 Aug 3.

PMID:
25157264
[PubMed]
Free PMC Article
6.

Conserved PCR primer set designing for closely-related species to complete mitochondrial genome sequencing using a sliding window-based PSO algorithm.

Yang CH, Chang HW, Ho CH, Chou YC, Chuang LY.

PLoS One. 2011 Mar 18;6(3):e17729. doi: 10.1371/journal.pone.0017729.

PMID:
21445268
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Design factors that influence PCR amplification success of cross-species primers among 1147 mammalian primer pairs.

Housley DJ, Zalewski ZA, Beckett SE, Venta PJ.

BMC Genomics. 2006 Oct 9;7:253.

PMID:
17029642
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

ConservedPrimers 2.0: a high-throughput pipeline for comparative genome referenced intron-flanking PCR primer design and its application in wheat SNP discovery.

You FM, Huo N, Gu YQ, Lazo GR, Dvorak J, Anderson OD.

BMC Bioinformatics. 2009 Oct 13;10:331. doi: 10.1186/1471-2105-10-331.

PMID:
19825183
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

DENS (differential extension with nucleotide subsets): application to the sequencing of human genomic DNA and cDNA.

Zevin-Sonkin D, Liberzon A, Chochikyan A, Hovhannisyan H, Lvovsky L, Ulanovsky L.

DNA Seq. 1999;10(4-5):245-54.

PMID:
10727081
[PubMed - indexed for MEDLINE]
10.

A general method for nested RT-PCR amplification and sequencing the complete HCV genotype 1 open reading frame.

Yao E, Tavis JE; Virahep-C Study Group.

Virol J. 2005 Dec 1;2:88.

PMID:
16321149
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Amplification of various genes of human group B rotavirus from stool specimens by RT-PCR.

Sen A, Kobayashi N, Das S, Krishnan T, Bhattacharya SK, Urasawa S, Naik TN.

J Clin Virol. 2000 Sep 1;17(3):177-81.

PMID:
10996114
[PubMed - indexed for MEDLINE]
12.

CODEHOP PCR and CODEHOP PCR primer design.

Staheli JP, Boyce R, Kovarik D, Rose TM.

Methods Mol Biol. 2011;687:57-73. doi: 10.1007/978-1-60761-944-4_5.

PMID:
20967601
[PubMed - indexed for MEDLINE]
13.

PriSM: a primer selection and matching tool for amplification and sequencing of viral genomes.

Yu Q, Ryan EM, Allen TM, Birren BW, Henn MR, Lennon NJ.

Bioinformatics. 2011 Jan 15;27(2):266-7. doi: 10.1093/bioinformatics/btq624. Epub 2010 Nov 9.

PMID:
21068001
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Degenerate primers for PCR amplification and sequencing of the avian influenza A neuraminidase gene.

Orozovic G, Latorre-Margalef N, Wahlgren J, Muradrasoli S, Olsen B.

J Virol Methods. 2010 Dec;170(1-2):94-8. doi: 10.1016/j.jviromet.2010.09.006. Epub 2010 Sep 15.

PMID:
20837063
[PubMed - indexed for MEDLINE]
15.

High-throughput sequencing of PCR products tagged with universal primers using 454 life sciences systems.

Daigle D, Simen BB, Pochart P.

Curr Protoc Mol Biol. 2011 Oct;Chapter 7:Unit7.5. doi: 10.1002/0471142727.mb0705s96.

PMID:
21987058
[PubMed - indexed for MEDLINE]
16.

High throughput HLA genotyping using 454 sequencing and the Fluidigm Access Array™ System for simplified amplicon library preparation.

Moonsamy PV, Williams T, Bonella P, Holcomb CL, Höglund BN, Hillman G, Goodridge D, Turenchalk GS, Blake LA, Daigle DA, Simen BB, Hamilton A, May AP, Erlich HA.

Tissue Antigens. 2013 Mar;81(3):141-9. doi: 10.1111/tan.12071.

PMID:
23398507
[PubMed - indexed for MEDLINE]
17.

A TaqMan PCR assay using degenerate primers for the quantitative detection of woodchuck hepatitis virus DNA of multiple genotypes.

Huang Z, Buckwold VE.

Mol Cell Probes. 2005 Aug;19(4):282-9.

PMID:
16005181
[PubMed - indexed for MEDLINE]
18.

Designing primers from multiple sequences using Matchup program to improve detection of hepatitis B virus by polymerase chain reaction.

Jang SY, Kim MS, Park MS, Lee KM, Chung HW, Chun J, Lee CH.

J Microbiol. 2010 Feb;48(1):111-6. doi: 10.1007/s12275-009-0282-8. Epub 2010 Mar 11.

PMID:
20221738
[PubMed - indexed for MEDLINE]
19.

Accurate sampling and deep sequencing of the HIV-1 protease gene using a Primer ID.

Jabara CB, Jones CD, Roach J, Anderson JA, Swanstrom R.

Proc Natl Acad Sci U S A. 2011 Dec 13;108(50):20166-71. doi: 10.1073/pnas.1110064108. Epub 2011 Nov 30.

PMID:
22135472
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Characterizing homologues of crop domestication genes in poorly described wild relatives by high-throughput sequencing of whole genomes.

Malory S, Shapter FM, Elphinstone MS, Chivers IH, Henry RJ.

Plant Biotechnol J. 2011 Dec;9(9):1131-40. doi: 10.1111/j.1467-7652.2011.00640.x. Epub 2011 Jul 15.

PMID:
21762354
[PubMed - indexed for MEDLINE]

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