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Results: 1 to 20 of 180

1.

GABenchToB: a genome assembly benchmark tuned on bacteria and benchtop sequencers.

Jünemann S, Prior K, Albersmeier A, Albaum S, Kalinowski J, Goesmann A, Stoye J, Harmsen D.

PLoS One. 2014 Sep 8;9(9):e107014. doi: 10.1371/journal.pone.0107014. eCollection 2014.

PMID:
25198770
[PubMed - in process]
Free PMC Article
2.

Orthology detection combining clustering and synteny for very large datasets.

Lechner M, Hernandez-Rosales M, Doerr D, Wieseke N, Thévenin A, Stoye J, Hartmann RK, Prohaska SJ, Stadler PF.

PLoS One. 2014 Aug 19;9(8):e105015. doi: 10.1371/journal.pone.0105015. eCollection 2014.

PMID:
25137074
[PubMed - in process]
Free PMC Article
3.

Discovery of transcription start sites in the Chinese hamster genome by next-generation RNA sequencing.

Jakobi T, Brinkrolf K, Tauch A, Noll T, Stoye J, Pühler A, Goesmann A.

J Biotechnol. 2014 Jul 31. pii: S0168-1656(14)00782-2. doi: 10.1016/j.jbiotec.2014.07.437. [Epub ahead of print]

PMID:
25086342
[PubMed - as supplied by publisher]
4.

Structural studies of postentry restriction factors reveal antiparallel dimers that enable avid binding to the HIV-1 capsid lattice.

Goldstone DC, Walker PA, Calder LJ, Coombs PJ, Kirkpatrick J, Ball NJ, Hilditch L, Yap MW, Rosenthal PB, Stoye JP, Taylor IA.

Proc Natl Acad Sci U S A. 2014 Jul 1;111(26):9609-14. doi: 10.1073/pnas.1402448111. Epub 2014 Jun 16.

PMID:
24979782
[PubMed - indexed for MEDLINE]
5.

ReadXplorer--visualization and analysis of mapped sequences.

Hilker R, Stadermann KB, Doppmeier D, Kalinowski J, Stoye J, Straube J, Winnebald J, Goesmann A.

Bioinformatics. 2014 Aug 15;30(16):2247-54. doi: 10.1093/bioinformatics/btu205. Epub 2014 Apr 30.

PMID:
24790157
[PubMed - in process]
Free PMC Article
6.

Mycoplasma salivarium as a dominant coloniser of Fanconi anaemia associated oral carcinoma.

Henrich B, Rumming M, Sczyrba A, Velleuer E, Dietrich R, Gerlach W, Gombert M, Rahn S, Stoye J, Borkhardt A, Fischer U.

PLoS One. 2014 Mar 18;9(3):e92297. doi: 10.1371/journal.pone.0092297. eCollection 2014.

PMID:
24642836
[PubMed - in process]
Free PMC Article
7.

Improving the genome annotation of the acarbose producer Actinoplanes sp. SE50/110 by sequencing enriched 5'-ends of primary transcripts.

Schwientek P, Neshat A, Kalinowski J, Klein A, Rückert C, Schneiker-Bekel S, Wendler S, Stoye J, Pühler A.

J Biotechnol. 2014 Mar 15. pii: S0168-1656(14)00116-3. doi: 10.1016/j.jbiotec.2014.03.013. [Epub ahead of print]

PMID:
24642337
[PubMed - as supplied by publisher]
8.

Evolution of the retroviral restriction gene Fv1: inhibition of non-MLV retroviruses.

Yap MW, Colbeck E, Ellis SA, Stoye JP.

PLoS Pathog. 2014 Mar 6;10(3):e1003968. doi: 10.1371/journal.ppat.1003968. eCollection 2014 Mar.

PMID:
24603659
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Statistics for approximate gene clusters.

Jahn K, Winter S, Stoye J, Böcker S.

BMC Bioinformatics. 2013;14 Suppl 15:S14. doi: 10.1186/1471-2105-14-S15-S14. Epub 2013 Dec 13.

PMID:
24564620
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

On the inversion-indel distance.

Willing E, Zaccaria S, Braga MD, Stoye J.

BMC Bioinformatics. 2013;14 Suppl 15:S3. doi: 10.1186/1471-2105-14-S15-S3. Epub 2013 Oct 15.

PMID:
24564182
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

BiPACE 2D--graph-based multiple alignment for comprehensive 2D gas chromatography-mass spectrometry.

Hoffmann N, Wilhelm M, Doebbe A, Niehaus K, Stoye J.

Bioinformatics. 2014 Apr 1;30(7):988-95. doi: 10.1093/bioinformatics/btt738. Epub 2013 Dec 20.

PMID:
24363380
[PubMed - indexed for MEDLINE]
12.

Structural basis of lentiviral subversion of a cellular protein degradation pathway.

Schwefel D, Groom HC, Boucherit VC, Christodoulou E, Walker PA, Stoye JP, Bishop KN, Taylor IA.

Nature. 2014 Jan 9;505(7482):234-8. doi: 10.1038/nature12815. Epub 2013 Dec 15.

PMID:
24336198
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Capsid-binding retrovirus restriction factors: discovery, restriction specificity and implications for the development of novel therapeutics.

Sanz-Ramos M, Stoye JP.

J Gen Virol. 2013 Dec;94(Pt 12):2587-98. doi: 10.1099/vir.0.058180-0. Epub 2013 Sep 11. Review.

PMID:
24026671
[PubMed - indexed for MEDLINE]
14.

Apparent effect of rabbit endogenous lentivirus type K acquisition on retrovirus restriction by lagomorph Trim5αs.

Yap MW, Stoye JP.

Philos Trans R Soc Lond B Biol Sci. 2013 Aug 12;368(1626):20120498. doi: 10.1098/rstb.2012.0498. Print 2013 Sep 19.

PMID:
23938750
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Are human endogenous retroviruses pathogenic? An approach to testing the hypothesis.

Young GR, Stoye JP, Kassiotis G.

Bioessays. 2013 Sep;35(9):794-803. doi: 10.1002/bies.201300049. Epub 2013 Jul 17. Review.

PMID:
23864388
[PubMed - indexed for MEDLINE]
Free Article
16.

metaBEETL: high-throughput analysis of heterogeneous microbial populations from shotgun DNA sequences.

Ander C, Schulz-Trieglaff OB, Stoye J, Cox AJ.

BMC Bioinformatics. 2013;14 Suppl 5:S2. doi: 10.1186/1471-2105-14-S5-S2. Epub 2013 Apr 10.

PMID:
23734710
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Next-generation-sequencing-spectratyping reveals public T-cell receptor repertoires in pediatric very severe aplastic anemia and identifies a β chain CDR3 sequence associated with hepatitis-induced pathogenesis.

Krell PF, Reuther S, Fischer U, Keller T, Weber S, Gombert M, Schuster FR, Asang C, Stepensky P, Strahm B, Meisel R, Stoye J, Borkhardt A.

Haematologica. 2013 Sep;98(9):1388-96. doi: 10.3324/haematol.2012.069708. Epub 2013 May 28.

PMID:
23716544
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Virology. Our viral inheritance.

Weiss RA, Stoye JP.

Science. 2013 May 17;340(6134):820-1. doi: 10.1126/science.1235148. No abstract available.

PMID:
23687035
[PubMed - indexed for MEDLINE]
19.

A unique spumavirus Gag N-terminal domain with functional properties of orthoretroviral matrix and capsid.

Goldstone DC, Flower TG, Ball NJ, Sanz-Ramos M, Yap MW, Ogrodowicz RW, Stanke N, Reh J, Lindemann D, Stoye JP, Taylor IA.

PLoS Pathog. 2013 May;9(5):e1003376. doi: 10.1371/journal.ppat.1003376. Epub 2013 May 9.

PMID:
23675305
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Updating benchtop sequencing performance comparison.

Jünemann S, Sedlazeck FJ, Prior K, Albersmeier A, John U, Kalinowski J, Mellmann A, Goesmann A, von Haeseler A, Stoye J, Harmsen D.

Nat Biotechnol. 2013 Apr;31(4):294-6. doi: 10.1038/nbt.2522. No abstract available. Erratum in: Nat Biotechnol. 2013 Dec;31(12):1148.

PMID:
23563421
[PubMed - indexed for MEDLINE]
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