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Items: 1 to 20 of 70

1.

Sequencing of BAC pools by different next generation sequencing platforms and strategies.

Taudien S, Steuernagel B, Ariyadasa R, Schulte D, Schmutzer T, Groth M, Felder M, Petzold A, Scholz U, Mayer KF, Stein N, Platzer M.

BMC Res Notes. 2011 Oct 14;4:411. doi: 10.1186/1756-0500-4-411.

2.

Whole Genome Profiling provides a robust framework for physical mapping and sequencing in the highly complex and repetitive wheat genome.

Philippe R, Choulet F, Paux E, van Oeveren J, Tang J, Wittenberg AH, Janssen A, van Eijk MJ, Stormo K, Alberti A, Wincker P, Akhunov E, van der Vossen E, Feuillet C.

BMC Genomics. 2012 Jan 30;13:47. doi: 10.1186/1471-2164-13-47.

3.

De novo 454 sequencing of barcoded BAC pools for comprehensive gene survey and genome analysis in the complex genome of barley.

Steuernagel B, Taudien S, Gundlach H, Seidel M, Ariyadasa R, Schulte D, Petzold A, Felder M, Graner A, Scholz U, Mayer KF, Platzer M, Stein N.

BMC Genomics. 2009 Nov 20;10:547. doi: 10.1186/1471-2164-10-547.

4.

GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.

Gritsenko AA, Nijkamp JF, Reinders MJ, de Ridder D.

Bioinformatics. 2012 Jun 1;28(11):1429-37. doi: 10.1093/bioinformatics/bts175. Epub 2012 Apr 6.

PMID:
22492642
5.

Assessing the feasibility of GS FLX Pyrosequencing for sequencing the Atlantic salmon genome.

Quinn NL, Levenkova N, Chow W, Bouffard P, Boroevich KA, Knight JR, Jarvie TP, Lubieniecki KP, Desany BA, Koop BF, Harkins TT, Davidson WS.

BMC Genomics. 2008 Aug 28;9:404. doi: 10.1186/1471-2164-9-404.

6.

Assessing the benefits of using mate-pairs to resolve repeats in de novo short-read prokaryotic assemblies.

Wetzel J, Kingsford C, Pop M.

BMC Bioinformatics. 2011 Apr 13;12:95. doi: 10.1186/1471-2105-12-95.

7.

A pilot study for channel catfish whole genome sequencing and de novo assembly.

Jiang Y, Lu J, Peatman E, Kucuktas H, Liu S, Wang S, Sun F, Liu Z.

BMC Genomics. 2011 Dec 22;12:629. doi: 10.1186/1471-2164-12-629.

8.

An efficient approach to BAC based assembly of complex genomes.

Visendi P, Berkman PJ, Hayashi S, Golicz AA, Bayer PE, Ruperao P, Hurgobin B, Montenegro J, Chan CK, Staňková H, Batley J, Šimková H, Doležel J, Edwards D.

Plant Methods. 2016 Jan 20;12:2. doi: 10.1186/s13007-016-0107-9. eCollection 2016.

9.

Sequencing of 6.7 Mb of the melon genome using a BAC pooling strategy.

González VM, Benjak A, Hénaff EM, Mir G, Casacuberta JM, Garcia-Mas J, Puigdomènech P.

BMC Plant Biol. 2010 Nov 12;10:246. doi: 10.1186/1471-2229-10-246.

10.

454 sequencing put to the test using the complex genome of barley.

Wicker T, Schlagenhauf E, Graner A, Close TJ, Keller B, Stein N.

BMC Genomics. 2006 Oct 26;7:275.

11.
12.

SOPRA: Scaffolding algorithm for paired reads via statistical optimization.

Dayarian A, Michael TP, Sengupta AM.

BMC Bioinformatics. 2010 Jun 24;11:345. doi: 10.1186/1471-2105-11-345.

13.

Assessing pooled BAC and whole genome shotgun strategies for assembly of complex genomes.

Haiminen N, Feltus FA, Parida L.

BMC Genomics. 2011 Apr 15;12:194. doi: 10.1186/1471-2164-12-194.

14.

Assessment of metagenomic assembly using simulated next generation sequencing data.

Mende DR, Waller AS, Sunagawa S, Järvelin AI, Chan MM, Arumugam M, Raes J, Bork P.

PLoS One. 2012;7(2):e31386. doi: 10.1371/journal.pone.0031386. Epub 2012 Feb 23. Erratum in: PLoS One. 2014;9(11):e114063.

15.

Low-pass shotgun sequencing of the barley genome facilitates rapid identification of genes, conserved non-coding sequences and novel repeats.

Wicker T, Narechania A, Sabot F, Stein J, Vu GT, Graner A, Ware D, Stein N.

BMC Genomics. 2008 Oct 31;9:518. doi: 10.1186/1471-2164-9-518.

16.

Sequencing of a QTL-rich region of the Theobroma cacao genome using pooled BACs and the identification of trait specific candidate genes.

Feltus FA, Saski CA, Mockaitis K, Haiminen N, Parida L, Smith Z, Ford J, Staton ME, Ficklin SP, Blackmon BP, Cheng CH, Schnell RJ, Kuhn DN, Motamayor JC.

BMC Genomics. 2011 Jul 27;12:379. doi: 10.1186/1471-2164-12-379.

17.

Direct comparisons of Illumina vs. Roche 454 sequencing technologies on the same microbial community DNA sample.

Luo C, Tsementzi D, Kyrpides N, Read T, Konstantinidis KT.

PLoS One. 2012;7(2):e30087. doi: 10.1371/journal.pone.0030087. Epub 2012 Feb 10. Erratum in: PLoS One. 2012;7(3):10.1371/annotation/64ba358f-a483-46c2-b224-eaa5b9a33939.

18.

Contig-Layout-Authenticator (CLA): A Combinatorial Approach to Ordering and Scaffolding of Bacterial Contigs for Comparative Genomics and Molecular Epidemiology.

Shaik S, Kumar N, Lankapalli AK, Tiwari SK, Baddam R, Ahmed N.

PLoS One. 2016 Jun 1;11(6):e0155459. doi: 10.1371/journal.pone.0155459. eCollection 2016.

19.

Pebble and rock band: heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler.

Zerbino DR, McEwen GK, Margulies EH, Birney E.

PLoS One. 2009 Dec 22;4(12):e8407. doi: 10.1371/journal.pone.0008407.

20.

Generation of physical map contig-specific sequences.

Jiang Y, Xu P, Liu Z.

Front Genet. 2014 Jul 22;5:243. doi: 10.3389/fgene.2014.00243. eCollection 2014. Review.

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