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Results: 1 to 20 of 46

1.

SNP markers retrieval for a non-model species: a practical approach.

Shahin A, van Gurp T, Peters SA, Visser RG, van Tuyl JM, Arens P.

BMC Res Notes. 2012 Jan 29;5:79. doi: 10.1186/1756-0500-5-79.

PMID:
22284269
[PubMed]
Free PMC Article
2.

Rapid gene-based SNP and haplotype marker development in non-model eukaryotes using 3'UTR sequencing.

Koepke T, Schaeffer S, Krishnan V, Jiwan D, Harper A, Whiting M, Oraguzie N, Dhingra A.

BMC Genomics. 2012 Jan 12;13:18. doi: 10.1186/1471-2164-13-18.

PMID:
22239826
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Short read Illumina data for the de novo assembly of a non-model snail species transcriptome (Radix balthica, Basommatophora, Pulmonata), and a comparison of assembler performance.

Feldmeyer B, Wheat CW, Krezdorn N, Rotter B, Pfenninger M.

BMC Genomics. 2011 Jun 16;12:317. doi: 10.1186/1471-2164-12-317.

PMID:
21679424
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Evaluating characteristics of de novo assembly software on 454 transcriptome data: a simulation approach.

Mundry M, Bornberg-Bauer E, Sammeth M, Feulner PG.

PLoS One. 2012;7(2):e31410. doi: 10.1371/journal.pone.0031410. Epub 2012 Feb 27.

PMID:
22384018
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Short reads and nonmodel species: exploring the complexities of next-generation sequence assembly and SNP discovery in the absence of a reference genome.

Everett MV, Grau ED, Seeb JE.

Mol Ecol Resour. 2011 Mar;11 Suppl 1:93-108. doi: 10.1111/j.1755-0998.2010.02969.x.

PMID:
21429166
[PubMed - indexed for MEDLINE]
6.

Comparing de novo assemblers for 454 transcriptome data.

Kumar S, Blaxter ML.

BMC Genomics. 2010 Oct 16;11:571. doi: 10.1186/1471-2164-11-571.

PMID:
20950480
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Reference-free transcriptome assembly in non-model animals from next-generation sequencing data.

Cahais V, Gayral P, Tsagkogeorga G, Melo-Ferreira J, Ballenghien M, Weinert L, Chiari Y, Belkhir K, Ranwez V, Galtier N.

Mol Ecol Resour. 2012 Sep;12(5):834-45. doi: 10.1111/j.1755-0998.2012.03148.x. Epub 2012 Apr 30.

PMID:
22540679
[PubMed - indexed for MEDLINE]
8.

Tracembler--software for in-silico chromosome walking in unassembled genomes.

Dong Q, Wilkerson MD, Brendel V.

BMC Bioinformatics. 2007 May 9;8:151.

PMID:
17490482
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Large scale single nucleotide polymorphism discovery in unsequenced genomes using second generation high throughput sequencing technology: applied to turkey.

Kerstens HH, Crooijmans RP, Veenendaal A, Dibbits BW, Chin-A-Woeng TF, den Dunnen JT, Groenen MA.

BMC Genomics. 2009 Oct 16;10:479. doi: 10.1186/1471-2164-10-479.

PMID:
19835600
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Critical assessment of assembly strategies for non-model species mRNA-Seq data and application of next-generation sequencing to the comparison of C(3) and C(4) species.

Bräutigam A, Mullick T, Schliesky S, Weber AP.

J Exp Bot. 2011 May;62(9):3093-102. doi: 10.1093/jxb/err029. Epub 2011 Mar 11.

PMID:
21398430
[PubMed - indexed for MEDLINE]
Free Article
11.

A comparison of simple sequence repeat and single nucleotide polymorphism marker technologies for the genotypic analysis of maize (Zea mays L.).

Jones ES, Sullivan H, Bhattramakki D, Smith JS.

Theor Appl Genet. 2007 Aug;115(3):361-71. Epub 2007 May 22.

PMID:
17639299
[PubMed - indexed for MEDLINE]
12.

SNP discovery in swine by reduced representation and high throughput pyrosequencing.

Wiedmann RT, Smith TP, Nonneman DJ.

BMC Genet. 2008 Dec 4;9:81. doi: 10.1186/1471-2156-9-81.

PMID:
19055830
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Development of highly polymorphic SNP markers from the complexity reduced portion of maize [Zea mays L.] genome for use in marker-assisted breeding.

Mammadov JA, Chen W, Ren R, Pai R, Marchione W, Yalçin F, Witsenboer H, Greene TW, Thompson SA, Kumpatla SP.

Theor Appl Genet. 2010 Aug;121(3):577-88. doi: 10.1007/s00122-010-1331-8. Epub 2010 Apr 18.

PMID:
20401646
[PubMed - indexed for MEDLINE]
14.

Developing genomic resources in two Linum species via 454 pyrosequencing and genomic reduction.

Fu YB, Peterson GW.

Mol Ecol Resour. 2012 May;12(3):492-500. doi: 10.1111/j.1755-0998.2011.03100.x. Epub 2011 Dec 18.

PMID:
22177006
[PubMed - indexed for MEDLINE]
15.

An efficient method for developing SNP markers based on EST data combined with high resolution melting (HRM) analysis.

Ujino-Ihara T, Taguchi Y, Moriguchi Y, Tsumura Y.

BMC Res Notes. 2010 Mar 2;3:51. doi: 10.1186/1756-0500-3-51.

PMID:
20193087
[PubMed]
Free PMC Article
17.

A high-throughput apple SNP genotyping platform using the GoldenGate™ assay.

Khan MA, Han Y, Zhao YF, Korban SS.

Gene. 2012 Feb 25;494(2):196-201. doi: 10.1016/j.gene.2011.12.001. Epub 2011 Dec 24.

PMID:
22209719
[PubMed - indexed for MEDLINE]
18.

Transcriptome characterization of the South African abalone Haliotis midae using sequencing-by-synthesis.

Franchini P, van der Merwe M, Roodt-Wilding R.

BMC Res Notes. 2011 Mar 11;4:59. doi: 10.1186/1756-0500-4-59.

PMID:
21396099
[PubMed]
Free PMC Article
19.

Simplifier: a web tool to eliminate redundant NGS contigs.

Ramos RT, Carneiro AR, Azevedo V, Schneider MP, Barh D, Silva A.

Bioinformation. 2012;8(20):996-9. doi: 10.6026/97320630008996. Epub 2012 Oct 13.

PMID:
23275695
[PubMed]
Free PMC Article
20.

Mass production of SNP markers in a nonmodel passerine bird through RAD sequencing and contig mapping to the zebra finch genome.

Bourgeois YX, Lhuillier E, Cézard T, Bertrand JA, Delahaie B, Cornuault J, Duval T, Bouchez O, Milá B, Thébaud C.

Mol Ecol Resour. 2013 Sep;13(5):899-907. doi: 10.1111/1755-0998.12137. Epub 2013 Jul 16.

PMID:
23855484
[PubMed - indexed for MEDLINE]

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