Browsing Department of Biomedicine by Title
Now showing items 124-143 of 736
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Compomics-utilities: an open-source Java library for computational proteomics
(Peer reviewed; Journal article, 2011-03-08)Background The growing interest in the field of proteomics has increased the demand for software tools and applications that process and analyze the resulting data. And even though the purpose of these tools can vary ... -
Comprehensive analysis of PSMD family members and validation of PSMD9 as a potential therapeutic target in human glioblastoma
(Journal article; Peer reviewed, 2023)Aims PSMD family members, as important components of the 26S proteasome, are well known to be involved in protein degradation. However, their role in glioblastoma (GBM) has not been rigorously investigated. We aimed to ... -
Computational characterization of modes of transcriptional regulation of nuclear receptor genes
(Peer reviewed; Journal article, 2014-02-13)Background: Nuclear receptors are a large structural class of transcription factors that act with their co-regulators and repressors to maintain a variety of biological and physiological processes such as metabolism, ... -
Conformational Sampling and Nucleotide-Dependent Transitions of the GroEL Subunit Probed by Unbiased Molecular Dynamics Simulations
(Peer reviewed; Journal article, 2011-03-10)GroEL is an ATP dependent molecular chaperone that promotes the folding of a large number of substrate proteins in E. coli. Large-scale conformational transitions occurring during the reaction cycle have been characterized ... -
Conformational stability and activity analysis of two hydroxymethylbilane synthase mutants, K132N and V215E, with different phenotypic association with acute intermittent porphyria
(Peer reviewed; Journal article, 2013-08)The autosomal dominantly inherited disease AIP (acute intermittent porphyria) is caused by mutations in HMBS [hydroxymethylbilane synthase; also known as PBG (porphobilinogen) deaminase], the third enzyme in the haem ... -
Conformational stabilization as a strategy to prevent nucleophosmin mislocalization in leukemia
(Peer reviewed; Journal article, 2017-10-24)Nucleophosmin (NPM) is a nucleolar protein involved in ribosome assembly and cell homeostasis. Mutations in the C-terminal domain of NPM that impair native folding and localization are associated with acute myeloid leukemia ... -
Consortium neuroscience of attention deficit/hyperactivity disorder and autism spectrum disorder: The ENIGMA adventure
(Journal article; Peer reviewed, 2020)Neuroimaging has been extensively used to study brain structure and function in individuals with attention deficit/hyperactivity disorder (ADHD) and autism spectrum disorder (ASD) over the past decades. Two of the main ... -
The cooperative folding of annexin A2 relies on a transient nonnative intermediate
(Journal article; Peer reviewed, 2022)Annexins (Anxs) are a family of highly homologous proteins that bind and aggregate lipid vesicles in the presence of calcium. All members of the family contain a variable N-terminus determining specific functions, followed ... -
Correlations between measures of executive attention and cortical thickness of left posterior middle frontal gyrus - a dichotic listening study
(Peer reviewed; Journal article, 2009-10-01)Background: The frontal lobe has been associated to a wide range of cognitive control functions and is also vulnerable to degeneration in old age. A recent study by Thomsen and colleagues showed a difference between a young ... -
COVID-19 and the environment: A critical review and research agenda
(Journal article; Peer reviewed, 2020)The current Coronavirus infection (COVID-19) outbreak has had a substantial impact on many aspects of general life. Although a number of studies have been published on the topic already, there has not been a critical review ... -
CREB family transcription factors are major mediators of BDNF transcriptional autoregulation in cortical neurons
(Peer reviewed; Journal article, 2020)BDNF signaling via its transmembrane receptor TrkB has an important role in neuronal survival, differentiation, and synaptic plasticity. Remarkably, BDNF is capable of modulating its own expression levels in neurons, forming ... -
A cross-species whole genome siRNA screen in suspension-cultured Chinese hamster ovary cells identifies novel engineering targets
(Peer reviewed; Journal article, 2019-06-18)High-throughput siRNA screens were only recently applied to cell factories to identify novel engineering targets which are able to boost cells towards desired phenotypes. While siRNA libraries exist for model organisms ... -
Crowdsourcing in proteomics: public resources lead to better experiments
(Peer reviewed; Journal article, 2013-04)With the growing interest in the field of proteomics, the amount of publicly available proteome resources has also increased dramatically. This means that there are many useful resources available for almost all aspects ... -
Cryo-EM, X-ray diffraction, and atomistic simulations reveal determinants for the formation of a supramolecular myelin-like proteolipid lattice
(Journal article; Peer reviewed, 2020)Myelin protein P2 is a peripheral membrane protein of the fatty acid–binding protein family that functions in the formation and maintenance of the peripheral nerve myelin sheath. Several P2 gene mutations cause human ... -
Crystal and solution structure of NDRG1, a membranebinding protein linked to myelination and tumour suppression
(Journal article; Peer reviewed, 2021)N-myc downstream-regulated gene 1 (NDRG1) is a tumour suppressor involved in vesicular trafficking and stress response. NDRG1 participates in peripheral nerve myelination, and mutations in the NDRG1 gene lead to ... -
Crystal and solution structures reveal oligomerization of individual capsid homology domains of Drosophila Arc
(Journal article; Peer reviewed, 2021)Synaptic plasticity is vital for brain function and memory formation. One of the key proteins in long-term synaptic plasticity and memory is the activity-regulated cytoskeleton-associated protein (Arc). Mammalian Arc forms ... -
Crystal structure of Pseudomonas aeruginosa FabB C161A, a template for structure-based design for new antibiotics
(Journal article; Peer reviewed, 2022)Background: FabB (3-oxoacyl-[acyl-carrier-protein] synthase 1) is part of the fatty acid synthesis II pathway found in bacteria and a potential target for antibiotics. The enzyme catalyses the Claisen condensation of ... -
Crystallographic home-source X-ray data for the atomic-resolution experimental phasing of the Shank3 SH3 domain structure from pseudomerohedrally twinned crystals
(Peer reviewed; Journal article, 2018-10)By far most macromolecular crystallographic data collection and experimental phasing is nowadays carried out using synchrotron radiation. Here, we present two crystallographic datasets collected on a home-source X-ray ... -
The Culture Dish Surface Influences the Phenotype and Cytokine Production of Human Monocyte-Derived Dendritic Cells
(Peer reviewed; Journal article, 2019-10-02)Monocyte-derived dendritic cells (moDC) are an important scientific and clinical source of functional dendritic cells (DC). However, the optimization of the generation process has to date mainly been limited to the variation ... -
Cuprizone and EAE mouse frontal cortex proteomics revealed proteins altered in multiple sclerosis
(Journal article; Peer reviewed, 2021)Two pathophysiological different experimental models for multiple sclerosis were analyzed in parallel using quantitative proteomics in attempts to discover protein alterations applicable as diagnostic-, prognostic-, or ...