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Results: 1 to 20 of 56

1.

Metagenomic Survey for Viruses in Western Arctic Caribou, Alaska, through Iterative Assembly of Taxonomic Units.

Schürch AC, Schipper D, Bijl MA, Dau J, Beckmen KB, Schapendonk CM, Raj VS, Osterhaus AD, Haagmans BL, Tryland M, Smits SL.

PLoS One. 2014 Aug 20;9(8):e105227. doi: 10.1371/journal.pone.0105227. eCollection 2014.

PMID:
25140520
[PubMed - in process]
Free PMC Article
2.

Enly: Improving Draft Genomes through Reads Recycling.

Fondi M, Orlandini V, Corti G, Severgnini M, Galardini M, Pietrelli A, Fuligni F, Iacono M, Rizzi E, De Bellis G, Fani R.

J Genomics. 2014 Apr 5;2:89-93. doi: 10.7150/jgen.7298. eCollection 2014.

PMID:
25031660
[PubMed]
Free PMC Article
3.

Value of a newly sequenced bacterial genome.

Barbosa EG, Aburjaile FF, Ramos RT, Carneiro AR, Le Loir Y, Baumbach J, Miyoshi A, Silva A, Azevedo V.

World J Biol Chem. 2014 May 26;5(2):161-8. doi: 10.4331/wjbc.v5.i2.161. Review.

PMID:
24921006
[PubMed]
Free PMC Article
4.

A computer simulator for assessing different challenges and strategies of de novo sequence assembly.

Knudsen B, Forsberg R, Miyamoto MM.

Genes (Basel). 2010 Sep 13;1(2):263-82. doi: 10.3390/genes1020263.

PMID:
24710045
[PubMed]
Free PMC Article
5.

Comparison of different assembly and annotation tools on analysis of simulated viral metagenomic communities in the gut.

Vázquez-Castellanos JF, García-López R, Pérez-Brocal V, Pignatelli M, Moya A.

BMC Genomics. 2014 Jan 18;15:37. doi: 10.1186/1471-2164-15-37.

PMID:
24438450
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Next-generation sequence assembly: four stages of data processing and computational challenges.

El-Metwally S, Hamza T, Zakaria M, Helmy M.

PLoS Comput Biol. 2013;9(12):e1003345. doi: 10.1371/journal.pcbi.1003345. Epub 2013 Dec 12. Review.

PMID:
24348224
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Students' perspective on genomics: from sample to sequence using the case study of blueberry.

Mudd AB, White EJ, Bolloskis MP, Kapur NP, Everhart KW, Lin YC, Bussler WW, Reid RW, Brown RH.

Front Genet. 2013 Nov 26;4:245. doi: 10.3389/fgene.2013.00245. eCollection 2013.

PMID:
24324481
[PubMed]
Free PMC Article
8.

Toward 959 nematode genomes.

Kumar S, Koutsovoulos G, Kaur G, Blaxter M.

Worm. 2012 Jan 1;1(1):42-50. doi: 10.4161/worm.19046. Review.

PMID:
24058822
[PubMed]
Free PMC Article
9.

Reducing assembly complexity of microbial genomes with single-molecule sequencing.

Koren S, Harhay GP, Smith TP, Bono JL, Harhay DM, Mcvey SD, Radune D, Bergman NH, Phillippy AM.

Genome Biol. 2013;14(9):R101.

PMID:
24034426
[PubMed - in process]
Free PMC Article
10.

Assembler for de novo assembly of large genomes.

Chu TC, Lu CH, Liu T, Lee GC, Li WH, Shih AC.

Proc Natl Acad Sci U S A. 2013 Sep 3;110(36):E3417-24. doi: 10.1073/pnas.1314090110. Epub 2013 Aug 21.

PMID:
23966565
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Sequence-based discovery of Bradyrhizobium enterica in cord colitis syndrome.

Bhatt AS, Freeman SS, Herrera AF, Pedamallu CS, Gevers D, Duke F, Jung J, Michaud M, Walker BJ, Young S, Earl AM, Kostic AD, Ojesina AI, Hasserjian R, Ballen KK, Chen YB, Hobbs G, Antin JH, Soiffer RJ, Baden LR, Garrett WS, Hornick JL, Marty FM, Meyerson M.

N Engl J Med. 2013 Aug 8;369(6):517-28. doi: 10.1056/NEJMoa1211115.

PMID:
23924002
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Evaluation of genome sequencing quality in selected plant species using expressed sequence tags.

Shangguan L, Han J, Kayesh E, Sun X, Zhang C, Pervaiz T, Wen X, Fang J.

PLoS One. 2013 Jul 29;8(7):e69890. doi: 10.1371/journal.pone.0069890. Print 2013.

PMID:
23922843
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Optimizing information in Next-Generation-Sequencing (NGS) reads for improving de novo genome assembly.

Liu T, Tsai CH, Lee WB, Chiang JH.

PLoS One. 2013 Jul 29;8(7):e69503. doi: 10.1371/journal.pone.0069503. Print 2013.

PMID:
23922726
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Directional RNA-seq reveals highly complex condition-dependent transcriptomes in E. coli K12 through accurate full-length transcripts assembling.

Li S, Dong X, Su Z.

BMC Genomics. 2013 Jul 30;14:520. doi: 10.1186/1471-2164-14-520.

PMID:
23899370
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Effects of GC bias in next-generation-sequencing data on de novo genome assembly.

Chen YC, Liu T, Yu CH, Chiang TY, Hwang CC.

PLoS One. 2013 Apr 29;8(4):e62856. doi: 10.1371/journal.pone.0062856. Print 2013.

PMID:
23638157
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

The use of RelocaTE and unassembled short reads to produce high-resolution snapshots of transposable element generated diversity in rice.

Robb SM, Lu L, Valencia E, Burnette JM 3rd, Okumoto Y, Wessler SR, Stajich JE.

G3 (Bethesda). 2013 Jun 21;3(6):949-57. doi: 10.1534/g3.112.005348.

PMID:
23576519
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

PRICE: software for the targeted assembly of components of (Meta) genomic sequence data.

Ruby JG, Bellare P, Derisi JL.

G3 (Bethesda). 2013 May 20;3(5):865-80. doi: 10.1534/g3.113.005967.

PMID:
23550143
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Chapter 12: Human microbiome analysis.

Morgan XC, Huttenhower C.

PLoS Comput Biol. 2012;8(12):e1002808. doi: 10.1371/journal.pcbi.1002808. Epub 2012 Dec 27.

PMID:
23300406
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Linearization of ancestral multichromosomal genomes.

Maňuch J, Patterson M, Wittler R, Chauve C, Tannier E.

BMC Bioinformatics. 2012;13 Suppl 19:S11. doi: 10.1186/1471-2105-13-S19-S11. Epub 2012 Dec 19.

PMID:
23281593
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

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

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