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Items: 1 to 20 of 217

1.

Novel tools for conservation genomics: comparing two high-throughput approaches for SNP discovery in the transcriptome of the European hake.

Milano I, Babbucci M, Panitz F, Ogden R, Nielsen RO, Taylor MI, Helyar SJ, Carvalho GR, Espiñeira M, Atanassova M, Tinti F, Maes GE, Patarnello T; FishPopTrace Consortium, Bargelloni L.

PLoS One. 2011;6(11):e28008. doi: 10.1371/journal.pone.0028008. Epub 2011 Nov 22.

2.

SNP discovery using Next Generation Transcriptomic Sequencing in Atlantic herring (Clupea harengus).

Helyar SJ, Limborg MT, Bekkevold D, Babbucci M, van Houdt J, Maes GE, Bargelloni L, Nielsen RO, Taylor MI, Ogden R, Cariani A, Carvalho GR; FishPopTrace Consortium, Panitz F.

PLoS One. 2012;7(8):e42089. doi: 10.1371/journal.pone.0042089. Epub 2012 Aug 7.

3.

SNP discovery in European anchovy (Engraulis encrasicolus, L) by high-throughput transcriptome and genome sequencing.

Montes I, Conklin D, Albaina A, Creer S, Carvalho GR, Santos M, Estonba A.

PLoS One. 2013 Aug 1;8(8):e70051. doi: 10.1371/journal.pone.0070051. Print 2013.

4.

Development of high-throughput SNP-based genotyping in Acacia auriculiformis x A. mangium hybrids using short-read transcriptome data.

Wong MM, Cannon CH, Wickneswari R.

BMC Genomics. 2012 Dec 24;13:726. doi: 10.1186/1471-2164-13-726.

5.

Comparative high-throughput transcriptome sequencing and development of SiESTa, the Silene EST annotation database.

Blavet N, Charif D, Oger-Desfeux C, Marais GA, Widmer A.

BMC Genomics. 2011 Jul 26;12:376. doi: 10.1186/1471-2164-12-376.

6.
7.

Two different high throughput sequencing approaches identify thousands of de novo genomic markers for the genetically depleted Bornean elephant.

Sharma R, Goossens B, Kun-Rodrigues C, Teixeira T, Othman N, Boone JQ, Jue NK, Obergfell C, O'Neill RJ, Chikhi L.

PLoS One. 2012;7(11):e49533. doi: 10.1371/journal.pone.0049533. Epub 2012 Nov 21. Erratum in: PLoS One. 2013;8(7). doi: 10.1371/annotation/8aaa2a9c-9c15-4214-808d-db8b0bd8ab88.

8.

De novo assembly of the pepper transcriptome (Capsicum annuum): a benchmark for in silico discovery of SNPs, SSRs and candidate genes.

Ashrafi H, Hill T, Stoffel K, Kozik A, Yao J, Chin-Wo SR, Van Deynze A.

BMC Genomics. 2012 Oct 30;13:571. doi: 10.1186/1471-2164-13-571.

9.

SNP discovery in non-model organisms using 454 next generation sequencing.

Wheat CW.

Methods Mol Biol. 2012;888:33-53. doi: 10.1007/978-1-61779-870-2_3.

PMID:
22665274
10.

De novo transcriptome characterization and development of genomic tools for Scabiosa columbaria L. using next-generation sequencing techniques.

Angeloni F, Wagemaker CA, Jetten MS, Op den Camp HJ, Janssen-Megens EM, Francoijs KJ, Stunnenberg HG, Ouborg NJ.

Mol Ecol Resour. 2011 Jul;11(4):662-74. doi: 10.1111/j.1755-0998.2011.02990.x. Epub 2011 Feb 21.

PMID:
21676196
11.

Gene-based single nucleotide polymorphism discovery in bovine muscle using next-generation transcriptomic sequencing.

Djari A, Esquerré D, Weiss B, Martins F, Meersseman C, Boussaha M, Klopp C, Rocha D.

BMC Genomics. 2013 May 7;14:307. doi: 10.1186/1471-2164-14-307.

12.

Western white pine SNP discovery and high-throughput genotyping for breeding and conservation applications.

Liu JJ, Sniezko RA, Sturrock RN, Chen H.

BMC Plant Biol. 2014 Dec 30;14:380. doi: 10.1186/s12870-014-0380-6.

13.

An investigation of causes of false positive single nucleotide polymorphisms using simulated reads from a small eukaryote genome.

Ribeiro A, Golicz A, Hackett CA, Milne I, Stephen G, Marshall D, Flavell AJ, Bayer M.

BMC Bioinformatics. 2015 Nov 11;16:382. doi: 10.1186/s12859-015-0801-z.

14.

Novel genomic resources for a climate change sensitive mammal: characterization of the American pika transcriptome.

Lemay MA, Henry P, Lamb CT, Robson KM, Russello MA.

BMC Genomics. 2013 May 10;14:311. doi: 10.1186/1471-2164-14-311.

15.

PeanutDB: an integrated bioinformatics web portal for Arachis hypogaea transcriptomics.

Duan X, Schmidt E, Li P, Lenox D, Liu L, Shu C, Zhang J, Liang C.

BMC Plant Biol. 2012 Jun 19;12:94. doi: 10.1186/1471-2229-12-94.

16.

Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence.

You FM, Huo N, Deal KR, Gu YQ, Luo MC, McGuire PE, Dvorak J, Anderson OD.

BMC Genomics. 2011 Jan 25;12:59. doi: 10.1186/1471-2164-12-59.

17.

Generation of SNP datasets for orangutan population genomics using improved reduced-representation sequencing and direct comparisons of SNP calling algorithms.

Greminger MP, Stölting KN, Nater A, Goossens B, Arora N, Bruggmann R, Patrignani A, Nussberger B, Sharma R, Kraus RH, Ambu LN, Singleton I, Chikhi L, van Schaik CP, Krützen M.

BMC Genomics. 2014 Jan 10;15:16. doi: 10.1186/1471-2164-15-16.

18.

De novo assembly of maritime pine transcriptome: implications for forest breeding and biotechnology.

Canales J, Bautista R, Label P, Gómez-Maldonado J, Lesur I, Fernández-Pozo N, Rueda-López M, Guerrero-Fernández D, Castro-Rodríguez V, Benzekri H, Cañas RA, Guevara MA, Rodrigues A, Seoane P, Teyssier C, Morel A, Ehrenmann F, Le Provost G, Lalanne C, Noirot C, Klopp C, Reymond I, García-Gutiérrez A, Trontin JF, Lelu-Walter MA, Miguel C, Cervera MT, Cantón FR, Plomion C, Harvengt L, Avila C, Gonzalo Claros M, Cánovas FM.

Plant Biotechnol J. 2014 Apr;12(3):286-99. doi: 10.1111/pbi.12136. Epub 2013 Nov 21.

19.

Genomic DNA enrichment using sequence capture microarrays: a novel approach to discover sequence nucleotide polymorphisms (SNP) in Brassica napus L.

Clarke WE, Parkin IA, Gajardo HA, Gerhardt DJ, Higgins E, Sidebottom C, Sharpe AG, Snowdon RJ, Federico ML, Iniguez-Luy FL.

PLoS One. 2013 Dec 3;8(12):e81992. doi: 10.1371/journal.pone.0081992. eCollection 2013.

20.

Genome wide SNP discovery in flax through next generation sequencing of reduced representation libraries.

Kumar S, You FM, Cloutier S.

BMC Genomics. 2012 Dec 6;13:684. doi: 10.1186/1471-2164-13-684.

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