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Items: 1 to 20 of 100

1.

Computational approaches for the identification of cancer genes and pathways.

Dimitrakopoulos CM, Beerenwinkel N.

Wiley Interdiscip Rev Syst Biol Med. 2016 Nov 11. doi: 10.1002/wsbm.1364. [Epub ahead of print] Review.

PMID:
27863091
2.

Recent advances in inferring viral diversity from high-throughput sequencing data.

Posada-Cespedes S, Seifert D, Beerenwinkel N.

Virus Res. 2016 Sep 28. pii: S0168-1702(16)30413-0. doi: 10.1016/j.virusres.2016.09.016. [Epub ahead of print] Review.

3.

A Genome-Wide siRNA Screen Implicates Spire1/2 in SipA-Driven Salmonella Typhimurium Host Cell Invasion.

Andritschke D, Dilling S, Emmenlauer M, Welz T, Schmich F, Misselwitz B, Rämö P, Rottner K, Kerkhoff E, Wada T, Penninger JM, Beerenwinkel N, Horvath P, Dehio C, Hardt WD.

PLoS One. 2016 Sep 14;11(9):e0161965. doi: 10.1371/journal.pone.0161965.

4.

Large-scale inference of conjunctive Bayesian networks.

Montazeri H, Kuipers J, Kouyos R, Böni J, Yerly S, Klimkait T, Aubert V, Günthard HF, Beerenwinkel N; Swiss HIV Cohort Study..

Bioinformatics. 2016 Sep 1;32(17):i727-i735. doi: 10.1093/bioinformatics/btw459.

PMID:
27587695
5.

Linear effects models of signaling pathways from combinatorial perturbation data.

Szczurek E, Beerenwinkel N.

Bioinformatics. 2016 Jun 15;32(12):i297-i305. doi: 10.1093/bioinformatics/btw268.

6.

Single-Molecule Sequencing Reveals Complex Genome Variation of Hepatitis B Virus during 15 Years of Chronic Infection following Liver Transplantation.

Betz-Stablein BD, Töpfer A, Littlejohn M, Yuen L, Colledge D, Sozzi V, Angus P, Thompson A, Revill P, Beerenwinkel N, Warner N, Luciani F.

J Virol. 2016 Jul 27;90(16):7171-83. doi: 10.1128/JVI.00243-16.

PMID:
27252524
7.

The Common Gut Microbe Eubacterium hallii also Contributes to Intestinal Propionate Formation.

Engels C, Ruscheweyh HJ, Beerenwinkel N, Lacroix C, Schwab C.

Front Microbiol. 2016 May 19;7:713. doi: 10.3389/fmicb.2016.00713.

8.

Tree inference for single-cell data.

Jahn K, Kuipers J, Beerenwinkel N.

Genome Biol. 2016 May 5;17:86. doi: 10.1186/s13059-016-0936-x.

9.

Sulforaphane Preconditioning Sensitizes Human Colon Cancer Cells towards the Bioreductive Anticancer Prodrug PR-104A.

Erzinger MM, Bovet C, Hecht KM, Senger S, Winiker P, Sobotzki N, Cristea S, Beerenwinkel N, Shay JW, Marra G, Wollscheid B, Sturla SJ.

PLoS One. 2016 Mar 7;11(3):e0150219. doi: 10.1371/journal.pone.0150219.

10.

Computational Cancer Biology: An Evolutionary Perspective.

Beerenwinkel N, Greenman CD, Lagergren J.

PLoS Comput Biol. 2016 Feb 4;12(2):e1004717. doi: 10.1371/journal.pcbi.1004717. Review. No abstract available.

11.

A Comprehensive Analysis of Primer IDs to Study Heterogeneous HIV-1 Populations.

Seifert D, Di Giallonardo F, Töpfer A, Singer J, Schmutz S, Günthard HF, Beerenwinkel N, Metzner KJ.

J Mol Biol. 2016 Jan 16;428(1):238-50. doi: 10.1016/j.jmb.2015.12.012.

12.

Erratum to: gespeR: a statistical model for deconvoluting off-target-confounded RNA interference screens.

Schmich F, Szczurek E, Kreibich S, Dilling S, Andritschke D, Casanova A, Low SH, Eicher S, Muntwiler S, Emmenlauer M, Rämo P, Conde-Alvarez R, von Mering C, Hardt WD, Dehio C, Beerenwinkel N.

Genome Biol. 2015 Oct 21;16:233. doi: 10.1186/s13059-015-0807-x. No abstract available.

13.

Perturbing resistance: a network perspective.

Levesque MP, Dummer R, Beerenwinkel N.

Pigment Cell Melanoma Res. 2016 Jan;29(1):5-7. doi: 10.1111/pcmr.12431. No abstract available.

PMID:
26471867
14.

Ectopic expression of Msx2 in mammalian myotubes recapitulates aspects of amphibian muscle dedifferentiation.

Yilmaz A, Engeler R, Constantinescu S, Kokkaliaris KD, Dimitrakopoulos C, Schroeder T, Beerenwinkel N, Paro R.

Stem Cell Res. 2015 Nov;15(3):542-53. doi: 10.1016/j.scr.2015.09.012.

15.

gespeR: a statistical model for deconvoluting off-target-confounded RNA interference screens.

Schmich F, Szczurek E, Kreibich S, Dilling S, Andritschke D, Casanova A, Low SH, Eicher S, Muntwiler S, Emmenlauer M, Rämö P, Conde-Alvarez R, von Mering C, Hardt WD, Dehio C, Beerenwinkel N.

Genome Biol. 2015 Oct 7;16:220. doi: 10.1186/s13059-015-0783-1. Erratum in: Genome Biol. 2015;16:233.

16.

BMix: probabilistic modeling of occurring substitutions in PAR-CLIP data.

Golumbeanu M, Mohammadi P, Beerenwinkel N.

Bioinformatics. 2016 Apr 1;32(7):976-83. doi: 10.1093/bioinformatics/btv520.

PMID:
26342229
17.

Estimating Fitness of Viral Quasispecies from Next-Generation Sequencing Data.

Seifert D, Beerenwinkel N.

Curr Top Microbiol Immunol. 2016;392:181-200. doi: 10.1007/82_2015_462. Review.

PMID:
26318139
18.

HIV-1 RNAs are Not Part of the Argonaute 2 Associated RNA Interference Pathway in Macrophages.

Vongrad V, Imig J, Mohammadi P, Kishore S, Jaskiewicz L, Hall J, Günthard HF, Beerenwinkel N, Metzner KJ.

PLoS One. 2015 Jul 30;10(7):e0132127. doi: 10.1371/journal.pone.0132127.

19.

TiMEx: a waiting time model for mutually exclusive cancer alterations.

Constantinescu S, Szczurek E, Mohammadi P, Rahnenführer J, Beerenwinkel N.

Bioinformatics. 2016 Apr 1;32(7):968-75. doi: 10.1093/bioinformatics/btv400.

PMID:
26163509
20.

Correction: 24 Hours in the Life of HIV-1 in a T Cell Line.

Mohammadi P, Desfarges S, Bartha I, Joos B, Zangger N, Muñoz M, Günthard HF, Beerenwinkel N, Telenti A, Ciuffi A.

PLoS Pathog. 2015 Jun 15;11(6):e1005006. doi: 10.1371/journal.ppat.1005006.

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