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Results: 1 to 20 of 144

1.

De novo genome sequence assembly of a filamentous fungus using Sanger, 454 and Illumina sequence data.

Diguistini S, Liao NY, Platt D, Robertson G, Seidel M, Chan SK, Docking TR, Birol I, Holt RA, Hirst M, Mardis E, Marra MA, Hamelin RC, Bohlmann J, Breuil C, Jones SJ.

Genome Biol. 2009;10(9):R94. doi: 10.1186/gb-2009-10-9-r94. Epub 2009 Sep 11.

PMID:
19747388
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

De novo assembly of a 40 Mb eukaryotic genome from short sequence reads: Sordaria macrospora, a model organism for fungal morphogenesis.

Nowrousian M, Stajich JE, Chu M, Engh I, Espagne E, Halliday K, Kamerewerd J, Kempken F, Knab B, Kuo HC, Osiewacz HD, Pöggeler S, Read ND, Seiler S, Smith KM, Zickler D, Kück U, Freitag M.

PLoS Genet. 2010 Apr 8;6(4):e1000891. doi: 10.1371/journal.pgen.1000891.

PMID:
20386741
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

A biologist's guide to de novo genome assembly using next-generation sequence data: A test with fungal genomes.

Haridas S, Breuill C, Bohlmann J, Hsiang T.

J Microbiol Methods. 2011 Sep;86(3):368-75. doi: 10.1016/j.mimet.2011.06.019. Epub 2011 Jul 3.

PMID:
21749903
[PubMed - indexed for MEDLINE]
4.

De novo assembly of short sequence reads.

Paszkiewicz K, Studholme DJ.

Brief Bioinform. 2010 Sep;11(5):457-72. doi: 10.1093/bib/bbq020. Epub 2010 Aug 19. Review.

PMID:
20724458
[PubMed - indexed for MEDLINE]
Free Article
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.

PMID:
18755037
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Fine de novo sequencing of a fungal genome using only SOLiD short read data: verification on Aspergillus oryzae RIB40.

Umemura M, Koyama Y, Takeda I, Hagiwara H, Ikegami T, Koike H, Machida M.

PLoS One. 2013 May 7;8(5):e63673. doi: 10.1371/journal.pone.0063673. Print 2013.

PMID:
23667655
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

High quality draft sequences for prokaryotic genomes using a mix of new sequencing technologies.

Aury JM, Cruaud C, Barbe V, Rogier O, Mangenot S, Samson G, Poulain J, Anthouard V, Scarpelli C, Artiguenave F, Wincker P.

BMC Genomics. 2008 Dec 16;9:603. doi: 10.1186/1471-2164-9-603.

PMID:
19087275
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps.

Tsai IJ, Otto TD, Berriman M.

Genome Biol. 2010;11(4):R41. doi: 10.1186/gb-2010-11-4-r41. Epub 2010 Apr 13.

PMID:
20388197
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

An ORFome assembly approach to metagenomics sequences analysis.

Ye Y, Tang H.

Comput Syst Bioinformatics Conf. 2008;7:3-13.

PMID:
19642264
[PubMed - indexed for MEDLINE]
Free Article
10.

Sequencing and assembly of highly heterozygous genome of Vitis vinifera L. cv Pinot Noir: problems and solutions.

Zharkikh A, Troggio M, Pruss D, Cestaro A, Eldrdge G, Pindo M, Mitchell JT, Vezzulli S, Bhatnagar S, Fontana P, Viola R, Gutin A, Salamini F, Skolnick M, Velasco R.

J Biotechnol. 2008 Aug 31;136(1-2):38-43. doi: 10.1016/j.jbiotec.2008.04.013. Epub 2008 May 3.

PMID:
18538432
[PubMed - indexed for MEDLINE]
11.

Draft genome sequencing of the enigmatic yeast Saitoella complicata.

Nishida H, Hamamoto M, Sugiyama J.

J Gen Appl Microbiol. 2011;57(4):243-6. No abstract available.

PMID:
21914972
[PubMed - indexed for MEDLINE]
Free Article
12.

PCR-based gene targeting in the filamentous fungus Ashbya gossypii.

Wendland J, Ayad-Durieux Y, Knechtle P, Rebischung C, Philippsen P.

Gene. 2000 Jan 25;242(1-2):381-91.

PMID:
10721732
[PubMed - indexed for MEDLINE]
13.

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
14.

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.

PMID:
17067373
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

ABySS: a parallel assembler for short read sequence data.

Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJ, Birol I.

Genome Res. 2009 Jun;19(6):1117-23. doi: 10.1101/gr.089532.108. Epub 2009 Feb 27.

PMID:
19251739
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Integrating sequencing technologies in personal genomics: optimal low cost reconstruction of structural variants.

Du J, Bjornson RD, Zhang ZD, Kong Y, Snyder M, Gerstein MB.

PLoS Comput Biol. 2009 Jul;5(7):e1000432. doi: 10.1371/journal.pcbi.1000432. Epub 2009 Jul 10.

PMID:
19593373
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

[Comparison of genomes between Aspergillus nidulans and 30 filamentous ascomycetes].

Zeng ZQ, Zhao FY, Hsiang T, Yu ZH.

Yi Chuan. 2010 Nov;32(11):1195-202. Chinese.

PMID:
21513172
[PubMed - indexed for MEDLINE]
18.

Resequencing and comparative genomics of Stagonospora nodorum: sectional gene absence and effector discovery.

Syme RA, Hane JK, Friesen TL, Oliver RP.

G3 (Bethesda). 2013 Jun 21;3(6):959-69. doi: 10.1534/g3.112.004994.

PMID:
23589517
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Paired-end sequencing of Fosmid libraries by Illumina.

Williams LJ, Tabbaa DG, Li N, Berlin AM, Shea TP, Maccallum I, Lawrence MS, Drier Y, Getz G, Young SK, Jaffe DB, Nusbaum C, Gnirke A.

Genome Res. 2012 Nov;22(11):2241-9. doi: 10.1101/gr.138925.112. Epub 2012 Jul 16.

PMID:
22800726
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Benchmarking next-generation transcriptome sequencing for functional and evolutionary genomics.

Gibbons JG, Janson EM, Hittinger CT, Johnston M, Abbot P, Rokas A.

Mol Biol Evol. 2009 Dec;26(12):2731-44. doi: 10.1093/molbev/msp188. Epub 2009 Aug 25.

PMID:
19706727
[PubMed - indexed for MEDLINE]
Free Article

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