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Results: 1 to 20 of 181


Identifying gene clusters by discovering common intervals in indeterminate strings.

Doerr D, Stoye J, Böcker S, Jahn K.

BMC Genomics. 2014;15 Suppl 6:S2. doi: 10.1186/1471-2164-15-S6-S2. Epub 2014 Oct 17.


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.


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.


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 Nov 20;190:64-75. doi: 10.1016/j.jbiotec.2014.07.437. Epub 2014 Jul 31.


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.


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.


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.


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 Nov 20;190:85-95. doi: 10.1016/j.jbiotec.2014.03.013. Epub 2014 Mar 15.


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.


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.


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.


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.


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.


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.


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.


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.


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.


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.


Virology. Our viral inheritance.

Weiss RA, Stoye JP.

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


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.

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