Dorothea Emig

TL;DR: A new software workflow composed of the open-source application AltAnalyze and the Cytoscape plugin DomainGraph provides an intuitive and comprehensive end-to-end solution for the analysis and visualization of alternative splicing data from Affymetrix Exon and Gene Arrays at the level of proteins, domains, microRNA binding sites, molecular interactions and pathways.

TL;DR: A coherent structural model for MAPK docking specificity is suggested that reveals how short linear motifs binding to a common kinase docking groove can mediate diverse interaction patterns and contribute to correct MAPK partner selection in signaling networks.

TL;DR: The bead-based registration framework is currently the only solution allowing robust, real-time registration of time-lapse SPIM recordings and enables fully unguided registration without prior knowledge of the arrangement of the views, and outperforms intensity- based registration approaches in terms of precision and speed.

TL;DR: This protocol guides the user through the most important features of Transitivity Clustering and takes ∼1 h to complete: protein (super)family detection with Cytoscape, protein homology detection with incomplete gold standards and clusters of gene expression data.

TL;DR: The analysis based on RNA-sequencing suggests that tissue-specific protein interactions are less common and mainly involved with transmembrane transport and receptor activation, and the number of alternative transcripts is increased for widely expressed genes, suggesting that alternative splicing plays a prominent role in generating specific functional characteristics of tissues.