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Results: 1 to 20 of 101

1.

Strategies towards sequencing complex crop genomes.

Abbott JC, Butcher SA.

Genome Biol. 2012 Nov 19;13(11):322. doi: 10.1186/gb4059.

PMID:
23164254
[PubMed - in process]
Free PMC Article
2.

Accessing complex crop genomes with next-generation sequencing.

Edwards D, Batley J, Snowdon RJ.

Theor Appl Genet. 2013 Jan;126(1):1-11. doi: 10.1007/s00122-012-1964-x. Epub 2012 Sep 5. Review.

PMID:
22948437
[PubMed - indexed for MEDLINE]
3.

Two Low Coverage Bird Genomes and a Comparison of Reference-Guided versus De Novo Genome Assemblies.

Card DC, Schield DR, Reyes-Velasco J, Fujita MK, Andrew AL, Oyler-McCance SJ, Fike JA, Tomback DF, Ruggiero RP, Castoe TA.

PLoS One. 2014 Sep 5;9(9):e106649. doi: 10.1371/journal.pone.0106649. eCollection 2014.

PMID:
25192061
[PubMed - in process]
Free PMC Article
4.

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.

PMID:
21486487
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Optimization of de novo transcriptome assembly from high-throughput short read sequencing data improves functional annotation for non-model organisms.

Haznedaroglu BZ, Reeves D, Rismani-Yazdi H, Peccia J.

BMC Bioinformatics. 2012 Jul 18;13:170. doi: 10.1186/1471-2105-13-170.

PMID:
22808927
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Identification of optimum sequencing depth especially for de novo genome assembly of small genomes using next generation sequencing data.

Desai A, Marwah VS, Yadav A, Jha V, Dhaygude K, Bangar U, Kulkarni V, Jere A.

PLoS One. 2013 Apr 12;8(4):e60204. doi: 10.1371/journal.pone.0060204. Print 2013.

PMID:
23593174
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Sequencing crop genomes: approaches and applications.

Jackson SA, Iwata A, Lee SH, Schmutz J, Shoemaker R.

New Phytol. 2011 Sep;191(4):915-25. doi: 10.1111/j.1469-8137.2011.03804.x. Epub 2011 Jun 27. Review.

PMID:
21707621
[PubMed - indexed for MEDLINE]
8.

State of the art de novo assembly of human genomes from massively parallel sequencing data.

Li Y, Hu Y, Bolund L, Wang J.

Hum Genomics. 2010 Apr;4(4):271-7. Review.

PMID:
20511140
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

High-quality draft assemblies of mammalian genomes from massively parallel sequence data.

Gnerre S, Maccallum I, Przybylski D, Ribeiro FJ, Burton JN, Walker BJ, Sharpe T, Hall G, Shea TP, Sykes S, Berlin AM, Aird D, Costello M, Daza R, Williams L, Nicol R, Gnirke A, Nusbaum C, Lander ES, Jaffe DB.

Proc Natl Acad Sci U S A. 2011 Jan 25;108(4):1513-8. doi: 10.1073/pnas.1017351108. Epub 2010 Dec 27.

PMID:
21187386
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Integrating genome assemblies with MAIA.

Nijkamp J, Winterbach W, van den Broek M, Daran JM, Reinders M, de Ridder D.

Bioinformatics. 2010 Sep 15;26(18):i433-9. doi: 10.1093/bioinformatics/btq366.

PMID:
20823304
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies.

Ruperao P, Chan CK, Azam S, Karafiátová M, Hayashi S, Cížková J, Saxena RK, Simková H, Song C, Vrána J, Chitikineni A, Visendi P, Gaur PM, Millán T, Singh KB, Taran B, Wang J, Batley J, Doležel J, Varshney RK, Edwards D.

Plant Biotechnol J. 2014 Aug;12(6):778-86. doi: 10.1111/pbi.12182. Epub 2014 Apr 5.

PMID:
24702794
[PubMed - in process]
12.

Advances in plant genome sequencing.

Hamilton JP, Buell CR.

Plant J. 2012 Apr;70(1):177-90. doi: 10.1111/j.1365-313X.2012.04894.x. Review.

PMID:
22449051
[PubMed - indexed for MEDLINE]
13.

Whole-genome sequencing and assembly with high-throughput, short-read technologies.

Sundquist A, Ronaghi M, Tang H, Pevzner P, Batzoglou S.

PLoS One. 2007 May 30;2(5):e484.

PMID:
17534434
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

The fast changing landscape of sequencing technologies and their impact on microbial genome assemblies and annotation.

Mavromatis K, Land ML, Brettin TS, Quest DJ, Copeland A, Clum A, Goodwin L, Woyke T, Lapidus A, Klenk HP, Cottingham RW, Kyrpides NC.

PLoS One. 2012;7(12):e48837. doi: 10.1371/journal.pone.0048837. Epub 2012 Dec 12.

PMID:
23251337
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Genome sequencing of bacteria: sequencing, de novo assembly and rapid analysis using open source tools.

Kisand V, Lettieri T.

BMC Genomics. 2013 Apr 1;14:211. doi: 10.1186/1471-2164-14-211.

PMID:
23547799
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Efficient and accurate whole genome assembly and methylome profiling of E. coli.

Powers JG, Weigman VJ, Shu J, Pufky JM, Cox D, Hurban P.

BMC Genomics. 2013 Oct 3;14:675. doi: 10.1186/1471-2164-14-675.

PMID:
24090403
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).

Foffi G, Pastore A, Piazza F, Temussi PA.

Phys Biol. 2013 Aug 2;10(4):040301. [Epub ahead of print]

PMID:
23912807
[PubMed - as supplied by publisher]
18.

Analysing complex Triticeae genomes - concepts and strategies.

Spannagl M, Martis MM, Pfeifer M, Nussbaumer T, Mayer KF.

Plant Methods. 2013 Sep 6;9(1):35. doi: 10.1186/1746-4811-9-35.

PMID:
24011260
[PubMed]
Free PMC Article
19.

BAC-pool sequencing and analysis of large segments of A12 and D12 homoeologous chromosomes in upland cotton.

Buyyarapu R, Kantety RV, Yu JZ, Xu Z, Kohel RJ, Percy RG, Macmil S, Wiley GB, Roe BA, Sharma GC.

PLoS One. 2013 Oct 8;8(10):e76757. doi: 10.1371/journal.pone.0076757. eCollection 2013.

PMID:
24116150
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Whole genome sequencing and de novo assembly identifies Sydney-like variant noroviruses and recombinants during the winter 2012/2013 outbreak in England.

Wong TH, Dearlove BL, Hedge J, Giess AP, Piazza P, Trebes A, Paul J, Smit E, Smith EG, Sutton JK, Wilcox MH, Dingle KE, Peto TE, Crook DW, Wilson DJ, Wyllie DH.

Virol J. 2013 Nov 13;10:335. doi: 10.1186/1743-422X-10-335.

PMID:
24220146
[PubMed - indexed for MEDLINE]
Free PMC Article

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