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Analyzing Next-Generation Sequence Data
‘Data deluge' is a term most scientists are familiar with, especially those involved in the handling and analysis of next-generation sequencing data. A single run from an Illumina Hi-seq 2000 sequencer can produce 6 billion sequence reads, thus getting biological information from it can be a challenge. more
PubDNA Finder in a Nutshell - Searching the Life Sciences Literature with Sequences of Nucleic ...
PubDNA Finder: Biomedical researchers and clinicians working with molecular technologies in routine clinical practice often need to review the available literature to gather information regarding specific sequences of nucleic acids. This includes, for instance, finding articles related to a concrete DNA sequence, or identifying empirically-validated primer/probe sequences to evaluate the presence of different micro-organisms. more
Social Media in Science and Medicine
To friend or not? This is the status quo in social media. But can this be applied to specific fields such as life sciences and medicine? more
Break Dance in the Genomes
Genomic structural variation such as deletion, inversion, and translocation can cause severe genetic disorders such as cancer and Alzheimer's disease. To study the genetics of these diseases, we developed a computational tool BreakDancer that detects a wide variety of structural variants in the human genome. We applied BreakDancer's to our cancer genome projects and to the 1,000 Genomes project. We found that the tool substantially improved the state of the art of SV detection, and that it is especially effective at detecting both small and large indels from 10 bp to 1 Mbp.more
Cross-platform Mass Spectrometry
Mass spectrometry gained a wide popularity among biologists and biochemists because all three main kinds of biopolymers - proteins, nucleic acids and saccharides - can be efficiently desorbed/desolvated and ionized for analysis in a variety of analyzers. Automated computer-based solutions were devised for all three biopolymers, leading in particular to high throughput proteomics and to glycomics. These computer systems are usually shipped by mass spectrometer vendors along with their instruments. more
Starting with a Single Cell
In many branches of sciences, a precise mathematical description is a key to obtain a consistent understanding of the underlying principles. The complexity of the development of a higher organism seems to preclude such an approach in this discipline. However, recently it was shown that basic types of the molecular interaction allowing pattern formation can be described by sets of coupled partial equations. They allow computer simulations that mimic the observation rather precisely. Meanwhile these theories found direct support by observation on the molecular-genetic level. more
Laboratory Information Technology
Mass Spectrometry (MS) is finding new users every day. As experience and insights are growing, new types of applications rapidly emerge. A problem is the multitude of data and file formats, hence this article is focused on formats and analytical topics.Overview
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Towards High-density Non-volatile Solid State Memories
We want the electronic gadgets of tomorrow to be smaller and lighter, but also faster and more powerful: Whether MP3 players, camera mobile phones, navigation systems or notebooks, all have to be compact but also able to store increasingly large amounts of music, images, films or maps, and process them quickly. more
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