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Similar articles for PubMed (Select 18405373)

1.

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.

2.

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.

3.

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.

4.

Preparing a re-sequencing DNA library of 2 cancer candidate genes using the ligation-by-amplification protocol by two PCR reactions.

Su Y, Lin L, Tian G, Chen C, Liu T, Xu X, Qi X, Zhang X, Yang H.

Sci China C Life Sci. 2009 May;52(5):483-91. doi: 10.1007/s11427-009-0066-8. Epub 2009 May 27.

PMID:
19471873
5.

Computational tradeoffs in multiplex PCR assay design for SNP genotyping.

Rachlin J, Ding C, Cantor C, Kasif S.

BMC Genomics. 2005 Jul 25;6:102.

6.

AutoDimer: a screening tool for primer-dimer and hairpin structures.

Vallone PM, Butler JM.

Biotechniques. 2004 Aug;37(2):226-31.

PMID:
15335214
7.

Primer design for RT-PCR.

Li K, Brownley A.

Methods Mol Biol. 2010;630:271-99. doi: 10.1007/978-1-60761-629-0_18.

PMID:
20301004
8.

RExPrimer: an integrated primer designing tool increases PCR effectiveness by avoiding 3' SNP-in-primer and mis-priming from structural variation.

Piriyapongsa J, Ngamphiw C, Assawamakin A, Wangkumhang P, Suwannasri P, Ruangrit U, Agavatpanitch G, Tongsima S.

BMC Genomics. 2009 Dec 3;10 Suppl 3:S4. doi: 10.1186/1471-2164-10-S3-S4.

9.

Dual-genome primer design for construction of DNA microarrays.

Andersson A, Bernander R, Nilsson P.

Bioinformatics. 2005 Feb 1;21(3):325-32. Epub 2004 Aug 27.

10.

Primer design for large scale sequencing.

Haas S, Vingron M, Poustka A, Wiemann S.

Nucleic Acids Res. 1998 Jun 15;26(12):3006-12.

11.

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.

12.

Primer design for PCR and sequencing in high-throughput analysis of SNPs.

Vieux EF, Kwok PY, Miller RD.

Biotechniques. 2002 Jun;Suppl:28-30, 32.

PMID:
12083394
13.

MuPlex: multi-objective multiplex PCR assay design.

Rachlin J, Ding C, Cantor C, Kasif S.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W544-7.

14.

hybseek: pathogen primer design tool for diagnostic multi-analyte assays.

Frech C, Breuer K, Ronacher B, Kern T, Sohn C, Gebauer G.

Comput Methods Programs Biomed. 2009 May;94(2):152-60. doi: 10.1016/j.cmpb.2008.12.007. Epub 2009 Feb 6.

PMID:
19201047
15.

An efficient algorithm for minimum degeneracy primer selection.

Balla S, Rajasekaran S.

IEEE Trans Nanobioscience. 2007 Mar;6(1):12-7.

PMID:
17393845
16.

Primaclade--a flexible tool to find conserved PCR primers across multiple species.

Gadberry MD, Malcomber ST, Doust AN, Kellogg EA.

Bioinformatics. 2005 Apr 1;21(7):1263-4. Epub 2004 Nov 11.

17.

URPD: a specific product primer design tool.

Chuang LY, Cheng YH, Yang CH.

BMC Res Notes. 2012 Jun 19;5:306. doi: 10.1186/1756-0500-5-306.

18.

Optimus Primer: A PCR enrichment primer design program for next-generation sequencing of human exonic regions.

Brown AM, Lo KS, Guelpa P, Beaudoin M, Rioux JD, Tardif JC, Phillips MS, Lettre G.

BMC Res Notes. 2010 Jul 7;3:185. doi: 10.1186/1756-0500-3-185.

19.
20.

Set of novel tools for PCR primer design.

Gorelenkov V, Antipov A, Lejnine S, Daraselia N, Yuryev A.

Biotechniques. 2001 Dec;31(6):1326-30.

PMID:
11768662
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