Application of regulatory sequence analysis and metabolic network analysis to the interpretation of gene expression data

We present two complementary approaches for the interpretation of clusters of co-regulated genes, such as those obtained from DNA chips and related methods. Starting from a cluster of genes with similar expression profiles, two basic questions can be asked: 1. Which mechanism is responsible for the coordinated transcriptional response of the genes? This question is approached by extracting motifs that are shared between the upstream sequences of these genes. The motifs extracted are putative cis-acting regulatory elements. 2. What is the physiological meaning for the cell to express together these genes? One way to answer the question is to search for potential metabolic pathways that could be catalyzed by the products of the genes. This can be done by selecting the genes from the cluster that code for enzymes, and trying to assemble the catalyzed reactions to form metabolic pathways. We present tools to answer these two questions, and we illustrate their use with selected examples in the yeast Saccharomyces cerevisiae. The tools are available on the web (http://ucmb.ulb.ac.be/bioinformatics/rsa-tools/; http://www.ebi.ac.uk/research/pfbp/; http://www.soi.city.ac.uk/~msch/)

Perspectieven voor management accounting onderzoek

Perspectieven voor manage­ ment accountingonderzoe

The First Three Rungs of the Cosmological Distance Ladder

It is straightforward to determine the size of the Earth and the distance to the Moon without making use of a telescope. The methods have been known since the 3rd century BC. However, few amateur or professional astronomers have worked this out from data they themselves have taken. Here we use a gnomon to determine the latitude and longitude of South Bend, Indiana, and College Station, Texas, and determine a value of the radius of the Earth of 6290 km, only 1.4 percent smaller than the true value. We use the method of Aristarchus and the size of the Earth's shadow during the lunar eclipse of 2011 June 15 to derive an estimate of the distance to the Moon (62.3 R_Earth), some 3.3 percent greater than the true mean value. We use measurements of the angular motion of the Moon against the background stars over the course of two nights, using a simple cross staff device, to estimate the Moon's distance at perigee and apogee. Finally, we use simultaneous CCD observations of asteroid 1996 HW1 obtained with small telescopes in Socorro, New Mexico, and Ojai, California, to derive a value of the Astronomical Unit of (1.59 +/- 0.19) X 10^8 km, about 6 percent too large. The data and methods presented here can easily become part of a beginning astronomy lab class.Comment: 34 pages, 11 figures, accepted for publication in American Journal of Physic

Unraveling the internal dynamics of the benzene dimer: a combined theoretical and microwave spectroscopy study

Contains fulltext : 111457.pdf (publisher's version ) (Open Access

Revision of Laparoscopic Adjustable Gastric Banding: Success or Failure?

BACKGROUND: Laparoscopic adjustable gastric banding (LAGB) is a safe and frequently performed bariatric procedure. Unfortunately, re-operations are often necessary. Reports on the success of revisional procedures are scarce and show variable results, either supporting or declining the idea of revising LAGB. This study describes a large cohort of re-operations after failed LAGB to determine the success of revision. METHODS: By use of a prospective cohort, all LAGB revisions performed between 1996 and 2008 were identified. From 301 primary LAGB procedures in our centre, 43 patients (14.3%) required a band revision. In addition, 51 patients were referred from other centres. Our analysis included in total 94 patients with a mean follow-up period of 38 months after revision. RESULTS: Revision was mainly necessary due to anterior slippage (46%) and symmetrical pouch dilatation (36%), which could be resolved by replacing (70%) or refixating the band (27%). Weight loss significantly increased after revision (excess BMI loss (EBMIL), 37.2 +/- 36.3% versus 47.5 +/- 30.4%, P < 0.05). After revision, 23 patients (24%) needed a second re-operation. Patients converted to other procedures (16%) during the second re-operation showed larger weight loss than the revised group (EBMIL, 64.3 +/- 28.1% versus 44.3 +/- 28.7%, P < 0.05). CONCLUSIONS: We report on a large cohort of LAGB revisions with 38 months of follow-up. Revision of failed LAGB by either refixation or replacement of the band is successful and further increases weight loss