Ergebnisse einschränken

The neXtProt peptide uniqueness checker: a tool for the proteomics community

Schaeffer, Mathieu ; Gateau, Alain ; Teixeira, Daniel ; Michel, Pierre-André ; Zahn-Zabal, Monique ; Lane, Lydie ; Hancock, John ; Hancock, John

In: Bioinformatics, 2017, vol. 33, no. 21, p. 3471-3472

Understanding the glycome: an interactive view of glycosylation from glycocompositions to glycoepitopes

Alocci, Davide ; Ghraichy, Marie ; Barletta, Elena ; Gastaldello, Alessandra ; Mariethoz, Julien ; Lisacek, Frederique

In: Glycobiology, 2018, vol. 28, no. 6, p. 349-362

NGS-pipe: a flexible, easily extendable and highly configurable framework for NGS analysis

Singer, Jochen ; Ruscheweyh, Hans-Joachim ; Hofmann, Ariane L. ; Thurnherr, Thomas ; Singer, Franziska ; Toussaint, Nora C. ; Ng, Charlotte K Y. ; Piscuoglio, Salvatore ; Beisel, Christian ; Christofori, Gerhard ; Dummer, Reinhard ; Hall, Michael N. ; Krek, Wilhelm ; Levesque, Mitchell P. ; Manz, Markus G. ; Moch, Holger ; Papassotiropoulos, Andreas ; Stekhoven, Daniel J. ; Wild, Peter ; Wüst, Thomas ; Rinn, Bernd ; Beerenwinkel, Niko ; Berger, Bonnie ; Berger, Bonnie

In: Bioinformatics, 2018, vol. 34, no. 1, p. 107-108

On expert curation and scalability: UniProtKB/Swiss-Prot as a case study

Poux, Sylvain ; Arighi, Cecilia N. ; Magrane, Michele ; Bateman, Alex ; Wei, Chih-Hsuan ; Lu, Zhiyong ; Boutet, Emmanuel ; Bye-A-Jee, Hema ; Famiglietti, Maria Livia ; Roechert, Bernd ; UniProt Consortium, The ; Kelso, Janet ; Kelso, Janet

In: Bioinformatics, 2017, vol. 33, no. 21, p. 3454-3460

Knoto-ID: a tool to study the entanglement of open protein chains using the concept of knotoids

Dorier, Julien ; Goundaroulis, Dimos ; Benedetti, Fabrizio ; Stasiak, Andrzej ; Valencia, Alfonso ; Valencia, Alfonso

In: Bioinformatics, 2018, vol. 34, no. 19, p. 3402-3404

New quality measure for SNP array based CNV detection

Macé, A. ; Tuke, M.A. ; Beckmann, J.S. ; Lin, L. ; Jacquemont, S. ; Weedon, M.N. ; Reymond, A. ; Kutalik, Z.

In: Bioinformatics, 2016, vol. 32, no. 21, p. 3298-3305

NGS-based S. aureus typing and outbreak analysis in clinical microbiology laboratories : Lessons learned from a Swiss-wide proficiency test

Dylus, David ; Pillonel, Trestan ; Opota, Onya ; Wüthrich, Daniel ; Seth-Smith, Helena M. B. ; Egli, Adrian ; Leo, Stefano ; Lazarevic, Vladimir ; Schrenzel, Jacques ; Laurent, Sacha ; Bertelli, Claire ; Blanc, Dominique S. ; Neuenschwander, Stefan ; Ramette, Alban ; Falquet, Laurent ; Imkamp, Frank ; Keller, Peter M. ; Kahles, Andre ; Oberhaensli, Simone ; Barbié, Valérie ; Dessimoz, Christophe ; Greub, Gilbert ; Lebrand, Aitana

In: Frontiers in Microbiology, 2020, vol. 11, p. 591093

Whole genome sequencing (WGS) enables high resolution typing of bacteria up to the single nucleotide polymorphism (SNP) level. WGS is used in clinical microbiology laboratories for infection control, molecular surveillance and outbreak analyses. Given the large palette of WGS reagents and bioinformatics tools, the Swiss clinical bacteriology community decided to conduct a ring trial (RT) to...

Large-scale comparison of toxin and antitoxins in Listeria monocytogenes

Agüero, José Antonio ; Akarsu, Hatice ; Aguilar-Bultet, Lisandra ; Oevermann, Anna ; Falquet, Laurent

In: Toxins, 2020, vol. 12, no. 1, p. 29

Toxin–antitoxin systems (TASs) are widely distributed in prokaryotes and encode pairs of genes involved in many bacterial biological processes and mechanisms, including pathogenesis. The TASs have not been extensively studied in Listeria monocytogenes (Lm), a pathogenic bacterium of the Firmicutes phylum causing infections in animals and humans. Using our recently published TASmania...

A novel prostate cell type-specific gene signature to interrogate prostate tumor differentiation status and monitor therapeutic response (running title: Phenotypic classification of prostate tumors)

Mapelli, Sarah N. ; Albino, Domenico ; Mello-Grand, Maurizia ; Shinde, Dheeraj ; Scimeca, Manuel ; Bonfiglio, Rita ; Bonanno, Elena ; Chiorino, Giovanna ; Garcia-Escudero, Ramon ; Catapano, Carlo V. ; Carbone, Giuseppina M.

In: Cancers, 2020, vol. 12, no. 1, p. 23 p

In this study, we extracted prostate cell-specific gene sets (metagenes) to define the epithelial differentiation status of prostate cancers and, using a deconvolution-based strategy, interrogated thousands of primary and metastatic tumors in public gene profiling datasets. We identified a subgroup of primary prostate tumors with low luminal epithelial enrichment (LumElow). LumElow tumors were...

Unabhängige Validierung von Methoden zur Proteinstrukturvorhersage : CASP und CAMEO

Haas, Jürgen ; Schwede, Torsten

In: BIOspektrum, 2014, vol. 20, no. 2, p. 236-237