Detecting differential usage of exons from RNA-Seq data

RNA-Seq is a powerful tool for the study of alternative splicing and other forms of alternative isoform expression. Understanding the regulation of these processes requires comparisons between treatments, tissues or conditions. For the analysis of such experiments, we present _DEXSeq_, a statistical method to test for differential exon usage in RNA-Seq data. _DEXSeq_ employs generalized linear models and offers good detection power and reliable control of false discoveries by taking biological variation into account. An implementation is available as an R/Bioconductor package

Towards a Precise Semantics for Object-Oriented Modeling Techniques

In this paper we present a possible way how a precise semantics of object oriented modeling techniques can be achieved and what the possible benefits are .We outline the main modeling techniques used in the SysLab project sketch how a precise semantics can be given and how this semantics can be used during the development process.Comment: 6 pages, 0 figure

Time-Encoded Raman: Fiber-based, hyperspectral, broadband stimulated Raman microscopy

Raman sensing and Raman microscopy are amongst the most specific optical technologies to identify the chemical compounds of unknown samples, and to enable label-free biomedical imaging with molecular contrast. However, the high cost and complexity, low speed, and incomplete spectral information provided by current technology are major challenges preventing more widespread application of Raman systems. To overcome these limitations, we developed a new method for stimulated Raman spectroscopy and Raman imaging using continuous wave (CW), rapidly wavelength swept lasers. Our all-fiber, time-encoded Raman (TICO-Raman) setup uses a Fourier Domain Mode Locked (FDML) laser source to achieve a unique combination of high speed, broad spectral coverage (750 cm-1 - 3150 cm-1) and high resolution (0.5 cm-1). The Raman information is directly encoded and acquired in time. We demonstrate quantitative chemical analysis of a solvent mixture and hyperspectral Raman microscopy with molecular contrast of plant cells.Comment: 9 pages, 4 figure

Making the most of high-throughput protein-interaction data

Better methods of statistical analysis could make large-scale protein-interaction data more useful