Search
Results
-
PCR and real-time PCR primers developed for detection and identification of Bifidobacterium thermophilum in faeces
(2008)BMC MicrobiologyBackground Culture-independent methods based on the 16S ribosomal RNA molecule are nowadays widely used for assessment of the composition of the intestinal microbiota, in relation to host health or probiotic efficacy. Because Bifidobacterium thermophilum was only recently isolated from human faeces until now, no specific real-time PCR (qPCR) assay has been developed for detection of this species as component of the bifidobacterial community ...Journal Article -
Exon level integration of proteomics and microarray data
(2008)BMC BioinformaticsBackground Previous studies comparing quantitative proteomics and microarray data have generally found poor correspondence between the two. We hypothesised that this might in part be because the different assays were targeting different parts of the expressed genome and might therefore be subjected to confounding effects from processes such as alternative splicing. Results Using a genome database as a platform for integration, we ...Journal Article -
Corra: Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics
(2008)BMC BioinformaticsBackground Quantitative proteomics holds great promise for identifying proteins that are differentially abundant between populations representing different physiological or disease states. A range of computational tools is now available for both isotopically labeled and label-free liquid chromatography mass spectrometry (LC-MS) based quantitative proteomics. However, they are generally not comparable to each other in terms of functionality, ...Journal Article -
Algorithm of OMA for large-scale orthology inference
(2008)BMC BioinformaticsBackground OMA is a project that aims to identify orthologs within publicly available, complete genomes. With 657 genomes analyzed to date, OMA is one of the largest projects of its kind. Results The algorithm of OMA improves upon standard bidirectional best-hit approach in several respects: it uses evolutionary distances instead of scores, considers distance inference uncertainty, includes many-to-many orthologous relations, and ...Journal Article -
Understanding age-related modifications of motor control strategies
(2008)Journal of NeuroEngineering and RehabilitationJournal Article -
Standardized voluntary force measurement in a lower extremity rehabilitation robot
(2008)Journal of NeuroEngineering and RehablilitationBackground Isometric force measurements in the lower extremity are widely used in rehabilitation of subjects with neurological movement disorders (NMD) because walking ability has been shown to be related to muscle strength. Therefore muscle strength measurements can be used to monitor and control the effects of training programs. A new method to assess isometric muscle force was implemented in the driven gait orthosis (DGO) Lokomat. To ...Journal Article -
Characterization of age-related modifications of upper limb motor control strategies in a new dynamic environment
(2008)Journal of NeuroEngineering and RehabilitationBackground In the past, several research groups have shown that when a velocity dependent force field is applied during upper limb movements subjects are able to deal with this external perturbation after some training. This adaptation is achieved by creating a new internal model which is included in the normal unperturbed motor commands to achieve good performance. The efficiency of this motor control mechanism can be compromised by ...Journal Article -
Genomic characterisation, chromosomal assignment and in vivo localisation of the canine high mobility group A1 (HMGA1) gene
(2008)BMC GeneticsBackground: The high mobility group A1 proteins (HMGA1a/HMGA1b) are highly conserved between mammalian species and widely described as participating in various cellular processes. By inducing DNA conformation changes the HMGA1 proteins indirectly influence the binding of various transcription factors and therefore effect the transcription regulation. In humans chromosomal aberrations affecting the HMGA1 gene locus on HSA 6p21 were described ...Journal Article -
Chromosomal assignment of canine THADA gene to CFA 10q25
(2008)Molecular CytogeneticsBackground: Chromosomal translocations affecting the chromosome 2p21 cluster in a 450 kb breakpoint region are frequently observed in human benign thyroid adenomas. THADA (thyroid adenoma associated) was identified as the affected gene within this breakpoint region. In contrast to man tumours of the thyroid gland of dogs (Canis lupus familiaris) constitute mainly as follicular cell carcinomas, with malignant thyroid tumours being more ...Journal Article -
Covariance of maximum likelihood evolutionary distances between sequences aligned pairwise
(2008)BMC Evolutionary BiologyBackground The estimation of a distance between two biological sequences is a fundamental process in molecular evolution. It is usually performed by maximum likelihood (ML) on characters aligned either pairwise or jointly in a multiple sequence alignment (MSA). Estimators for the covariance of pairs from an MSA are known, but we are not aware of any solution for cases of pairs aligned independently. In large-scale analyses, it may be too ...Journal Article