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Items: 1 to 20 of 137

1.

Designing string-of-beads vaccines with optimal spacers.

Schubert B, Kohlbacher O.

Genome Med. 2016 Jan 26;8(1):9. doi: 10.1186/s13073-016-0263-6.

2.

Mass-Spectrometry-Based Proteomics Reveals Organ-Specific Expression Patterns To Be Used as Forensic Evidence.

Dammeier S, Nahnsen S, Veit J, Wehner F, Ueffing M, Kohlbacher O.

J Proteome Res. 2016 Jan 4;15(1):182-92. doi: 10.1021/acs.jproteome.5b00704. Epub 2015 Dec 8.

PMID:
26593679
3.

Immunoinformatics and epitope prediction in the age of genomic medicine.

Backert L, Kohlbacher O.

Genome Med. 2015 Nov 20;7(1):119. doi: 10.1186/s13073-015-0245-0.

4.

Testing and Validation of Computational Methods for Mass Spectrometry.

Gatto L, Hansen KD, Hoopmann MR, Hermjakob H, Kohlbacher O, Beyer A.

J Proteome Res. 2015 Nov 17. [Epub ahead of print]

PMID:
26549429
5.

Plants Release Precursors of Histone Deacetylase Inhibitors to Suppress Growth of Competitors.

Venturelli S, Belz RG, Kämper A, Berger A, von Horn K, Wegner A, Böcker A, Zabulon G, Langenecker T, Kohlbacher O, Barneche F, Weigel D, Lauer UM, Bitzer M, Becker C.

Plant Cell. 2015 Nov;27(11):3175-89. doi: 10.1105/tpc.15.00585. Epub 2015 Nov 3.

6.

DrugTargetInspector: An assistance tool for patient treatment stratification.

Schneider L, Stöckel D, Kehl T, Gerasch A, Ludwig N, Leidinger P, Huwer H, Tenzer S, Kohlbacher O, Hildebrandt A, Kaufmann M, Gessler M, Keller A, Meese E, Graf N, Lenhof HP.

Int J Cancer. 2016 Apr 1;138(7):1765-76. doi: 10.1002/ijc.29897.

7.

DNA-binding proteins from marine bacteria expand the known sequence diversity of TALE-like repeats.

de Lange O, Wolf C, Thiel P, Krüger J, Kleusch C, Kohlbacher O, Lahaye T.

Nucleic Acids Res. 2015 Nov 16;43(20):10065-80. doi: 10.1093/nar/gkv1053. Epub 2015 Oct 19.

8.

Dithiothreitol (DTT) Acts as a Specific, UV-inducible Cross-linker in Elucidation of Protein-RNA Interactions.

Zaman U, Richter FM, Hofele R, Kramer K, Sachsenberg T, Kohlbacher O, Lenz C, Urlaub H.

Mol Cell Proteomics. 2015 Dec;14(12):3196-210. doi: 10.1074/mcp.M115.052795. Epub 2015 Oct 8.

PMID:
26450613
9.

Retention Time Prediction Improves Identification in Nontargeted Lipidomics Approaches.

Aicheler F, Li J, Hoene M, Lehmann R, Xu G, Kohlbacher O.

Anal Chem. 2015 Aug 4;87(15):7698-704. doi: 10.1021/acs.analchem.5b01139. Epub 2015 Jul 22.

PMID:
26145158
10.

The antigenic landscape of multiple myeloma: mass spectrometry (re)defines targets for T-cell-based immunotherapy.

Walz S, Stickel JS, Kowalewski DJ, Schuster H, Weisel K, Backert L, Kahn S, Nelde A, Stroh T, Handel M, Kohlbacher O, Kanz L, Salih HR, Rammensee HG, Stevanović S.

Blood. 2015 Sep 3;126(10):1203-13. doi: 10.1182/blood-2015-04-640532. Epub 2015 Jul 2. Erratum in: Blood. 2015 Oct 22;126(17):2072-3.

11.

Protein (multi-)location prediction: utilizing interdependencies via a generative model.

Simha R, Briesemeister S, Kohlbacher O, Shatkay H.

Bioinformatics. 2015 Jun 15;31(12):i365-74. doi: 10.1093/bioinformatics/btv264.

12.

Analysis of protein-RNA interactions in CRISPR proteins and effector complexes by UV-induced cross-linking and mass spectrometry.

Sharma K, Hrle A, Kramer K, Sachsenberg T, Staals RH, Randau L, Marchfelder A, van der Oost J, Kohlbacher O, Conti E, Urlaub H.

Methods. 2015 Nov 1;89:138-48. doi: 10.1016/j.ymeth.2015.06.005. Epub 2015 Jun 10.

PMID:
26071038
13.

Nephron Toxicity Profiling via Untargeted Metabolome Analysis Employing a High Performance Liquid Chromatography-Mass Spectrometry-based Experimental and Computational Pipeline.

Ranninger C, Rurik M, Limonciel A, Ruzek S, Reischl R, Wilmes A, Jennings P, Hewitt P, Dekant W, Kohlbacher O, Huber CG.

J Biol Chem. 2015 Jul 31;290(31):19121-32. doi: 10.1074/jbc.M115.644146. Epub 2015 Jun 8.

PMID:
26055719
14.

Intuitive web-based experimental design for high-throughput biomedical data.

Friedrich A, Kenar E, Kohlbacher O, Nahnsen S.

Biomed Res Int. 2015;2015:958302. doi: 10.1155/2015/958302. Epub 2015 Apr 14.

15.

PIA: An Intuitive Protein Inference Engine with a Web-Based User Interface.

Uszkoreit J, Maerkens A, Perez-Riverol Y, Meyer HE, Marcus K, Stephan C, Kohlbacher O, Eisenacher M.

J Proteome Res. 2015 Jul 2;14(7):2988-97. doi: 10.1021/acs.jproteome.5b00121. Epub 2015 Jun 10.

PMID:
25938255
16.

Managing expectations when publishing tools and methods for computational proteomics.

Martens L, Kohlbacher O, Weintraub ST.

J Proteome Res. 2015 May 1;14(5):2002-4. doi: 10.1021/pr501318d. Epub 2015 Apr 22.

17.

EpiToolKit--a web-based workbench for vaccine design.

Schubert B, Brachvogel HP, Jürges C, Kohlbacher O.

Bioinformatics. 2015 Jul 1;31(13):2211-3. doi: 10.1093/bioinformatics/btv116. Epub 2015 Feb 20.

18.

Workflows for automated downstream data analysis and visualization in large-scale computational mass spectrometry.

Aiche S, Sachsenberg T, Kenar E, Walzer M, Wiswedel B, Kristl T, Boyles M, Duschl A, Huber CG, Berthold MR, Reinert K, Kohlbacher O.

Proteomics. 2015 Apr;15(8):1443-7. doi: 10.1002/pmic.201400391. Epub 2015 Feb 14.

19.

WIPI proteins: essential PtdIns3P effectors at the nascent autophagosome.

Proikas-Cezanne T, Takacs Z, Dönnes P, Kohlbacher O.

J Cell Sci. 2015 Jan 15;128(2):207-17. doi: 10.1242/jcs.146258.

20.

Dissecting neural differentiation regulatory networks through epigenetic footprinting.

Ziller MJ, Edri R, Yaffe Y, Donaghey J, Pop R, Mallard W, Issner R, Gifford CA, Goren A, Xing J, Gu H, Cacchiarelli D, Tsankov AM, Epstein C, Rinn JL, Mikkelsen TS, Kohlbacher O, Gnirke A, Bernstein BE, Elkabetz Y, Meissner A.

Nature. 2015 Feb 19;518(7539):355-9. doi: 10.1038/nature13990. Epub 2014 Dec 24.

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