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See detailIdentical Binding Energies and Work Functions for Distinct Adsorption Structures: Olympicenes on the Cu(111) Surface
Liu, Wei; Schuler, Bruno; Xu, Yong et al

in The Journal of Physical Chemistry Letters (2016), 7(6), 1022-1027

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See detailIdentifiability of Finite Mixture Models
Noel, Cédric; Schiltz, Jang UL

Scientific Conference (2020, June 04)

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See detailIdentificación y control en cascada mediante inversión de no linealidades del cuatrirrotor para el Concurso de Ingeniería de Control CEA IFAC 2012
Hernandez Hernandez, Lucia; Pestana, Jesus; Casares Palomeque, Daniel et al

in RIAI - Revista Iberoamericana de Automatica e Informatica Industrial (2013), 10(3),

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See detailIdentification and Characterization of Variant Intolerant Sites across Human Protein 3-Dimensional Structures
Iqbal, Sumaiya; Berg Jespersen, Jakob; Perez-Palma, Eduardo et al

in Biophysical Journal (2018, February 02), 114(3, Suppl. 1), 664

The functional interpretation of genetic variation in disease-associated genes is far outpaced by data generation. Existing algorithms for prediction of variant consequences do not adequately distinguish ... [more ▼]

The functional interpretation of genetic variation in disease-associated genes is far outpaced by data generation. Existing algorithms for prediction of variant consequences do not adequately distinguish pathogenic variants from benign rare variants. This lack of statistical and bioinformatics analyses, accompanied by an ever-increasing number of identified variants in biomedical research and clinical applications, has become a major challenge. Established methods to predict the functional effect of genetic variation use the degree of amino acid conservation across species in linear protein sequence alignment. More recent methods include the spatial distribution pattern of known patient and control variants. Here, we propose to combine the linear conservation and spatial constrained based scores to devise a novel score that incorporates 3-dimensional structural properties of amino acid residues, such as the solvent-accessible surface area, degree of flexibility, secondary structure propensity and binding tendency, to quantify the effect of amino acid substitutions. For this study, we develop a framework for large-scale mapping of established linear sequence-based paralog and ortholog conservation scores onto the tertiary structures of human proteins. This framework can be utilized to map the spatial distribution of mutations on solved protein structures as well as homology models. As a proof of concept, using a homology model of the human Nav1.2 voltage-gated sodium channel structure, we observe spatial clustering in distinct domains of mutations, associated with Autism Spectrum Disorder (>20 variants) and Epilepsy (>100 variants), that exert opposing effects on channel function. We are currently characterizing all variants (>300k individuals) found in ClinVar, the largest disease variant database, as well as variants identified in >140k individuals from general population. The variant mapping framework and our score, informed with structural information, will be useful in identifying structural motifs of proteins associated with disease risk. [less ▲]

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See detailIdentification and classification of ncRNA molecules using graph properties.
Childs, Liam; Nikoloski, Zoran; May, Patrick UL et al

in Nucleic Acids Research (2009), 37(9), 66

The study of non-coding RNA genes has received increased attention in recent years fuelled by accumulating evidence that larger portions of genomes than previously acknowledged are transcribed into RNA ... [more ▼]

The study of non-coding RNA genes has received increased attention in recent years fuelled by accumulating evidence that larger portions of genomes than previously acknowledged are transcribed into RNA molecules of mostly unknown function, as well as the discovery of novel non-coding RNA types and functional RNA elements. Here, we demonstrate that specific properties of graphs that represent the predicted RNA secondary structure reflect functional information. We introduce a computational algorithm and an associated web-based tool (GraPPLE) for classifying non-coding RNA molecules as functional and, furthermore, into Rfam families based on their graph properties. Unlike sequence-similarity-based methods and covariance models, GraPPLE is demonstrated to be more robust with regard to increasing sequence divergence, and when combined with existing methods, leads to a significant improvement of prediction accuracy. Furthermore, graph properties identified as most informative are shown to provide an understanding as to what particular structural features render RNA molecules functional. Thus, GraPPLE may offer a valuable computational filtering tool to identify potentially interesting RNA molecules among large candidate datasets. [less ▲]

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See detailIdentification and functional characterization of a novel R621C mutation in the synphilin-1 gene in Parkinson's disease.
Marx, Frank P.; Holzmann, Carsten; Strauss, Karsten M. et al

in Human molecular genetics (2003), 12(11), 1223-31

Synphilin-1 is linked to the pathogenesis of Parkinson's disease (PD) based on its identification as an alpha-synuclein (PARK1) and parkin (PARK2) interacting protein. Moreover, synphilin-1 is a component ... [more ▼]

Synphilin-1 is linked to the pathogenesis of Parkinson's disease (PD) based on its identification as an alpha-synuclein (PARK1) and parkin (PARK2) interacting protein. Moreover, synphilin-1 is a component of Lewy bodies (LB) in brains of sporadic PD patients. Therefore, we performed a detailed mutation analysis of the synphilin-1 gene in 328 German familial and sporadic PD patients. In two apparently sporadic PD patients we deciphered a novel C to T transition in position 1861 of the coding sequence leading to an amino acid substitution from arginine to cysteine in position 621 (R621C). This mutation was absent in a total of 702 chromosomes of healthy German controls. To define a possible role of mutant synphilin-1 in the pathogenesis of PD we performed functional analyses in SH-SY5Y cells. We found synphilin-1 capable of producing cytoplasmic inclusions in transfected cells. Moreover we observed a significantly reduced number of inclusions in cells expressing C621 synphilin-1 compared with cells expressing wild-type (wt) synphilin-1, when subjected to proteasomal inhibition. C621 synphilin-1 transfected cells were more susceptible to staurosporine-induced cell death than cells expressing wt synphilin-1. Our findings argue in favour of a causative role of the R621C mutation in the synphilin-1 gene in PD and suggest that the formation of intracellular inclusions may be beneficial to cells and that a mutation in synphilin-1 that reduces this ability may sensitize neurons to cellular stress. [less ▲]

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See detailIdentification and functional dissection of localization signals within ataxin-3.
Antony, Paul UL; Mäntele, Simone; Mollenkopf, Phillip et al

in Neurobiology of Disease (2009), 36(2), 280-92

Spinocerebellar ataxia type 3 (SCA3) or Machado-Joseph disease (MJD) belongs to a group of autosomal dominant neurodegenerative diseases, which are caused by the expansion of a polyglutamine repeat in the ... [more ▼]

Spinocerebellar ataxia type 3 (SCA3) or Machado-Joseph disease (MJD) belongs to a group of autosomal dominant neurodegenerative diseases, which are caused by the expansion of a polyglutamine repeat in the affected protein, in this case ataxin-3. Ataxin-3 is mainly localized in the cytoplasm; however, one hallmark of SCA3 is the formation of ataxin-3-containing protein aggregates in the nucleus of neurons. Currently, it is not known how mutant ataxin-3 translocates into the nucleus. We performed localization assays of recently proposed and novel potential signals, functionally confirmed the activity of a nuclear localization signal, identified two novel nuclear export signals (NES 77 and NES 141), and determined crucial amino acids. In addition, we demonstrate the relevance of the identified signals for the intracellular localization of the N- and C-terminus of ataxin-3. Our findings stress the importance of investigating the mechanisms, which influence the intracellular distribution of ataxin-3 during the pathogenesis of SCA3. [less ▲]

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See detailIdentification des besoins plurilingues en contexte professionnel
Lejot, Eve UL

in Derivry-Plard, Martine; Suzuki, Elli (Eds.) La didactique plurilingue et pluriculturelle à l’épreuve du terrain éducatif. contraintes, résistances, tensions (2014)

Une entreprise aéronautique européenne est dans les faits un lieu hautement multilingue en raison de la localisation d’un de ses sites à Hambourg en Allemagne, de son siège social en France et des ... [more ▼]

Une entreprise aéronautique européenne est dans les faits un lieu hautement multilingue en raison de la localisation d’un de ses sites à Hambourg en Allemagne, de son siège social en France et des communications régulières avec des sites dans des zones hispanophones. Cette multinationale a officiellement recours à l’anglais comme lingua franca en interne et en externe, mais elle propose des services multilingues tels que les Newsletters, les services informatiques et des cours de langues à ses employés. L’objectif de cette étude est d’identifier les ressentis des apprenants par rapports aux situations plurilingues quotidiennes professionnelles. Le corpus d’analyse est composé de 576 questionnaires diffusés auprès des salariés de l’entreprise aéronautique avant de commencer une formation en anglais, en allemand, en français ou en espagnol. [less ▲]

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See detailL’IDENTIFICATION DES VICTIMES DE LA TRAITE DES ÊTRES HUMAINS LORS DES PROCÉDURES DE PROTECTION INTERNATIONALE ET DE RETOUR FORCÉ
Sommarribas, Adolfo UL; Nienaber, Birte UL

Report (2017)

La note de synthèse présente les principaux résultats de l’étude réalisée en 2013 et actualisée en 2017 par le point de contact luxembourgeois du European Migration Network sur «L’identification des ... [more ▼]

La note de synthèse présente les principaux résultats de l’étude réalisée en 2013 et actualisée en 2017 par le point de contact luxembourgeois du European Migration Network sur «L’identification des victimes de la traite des êtres humains lors des procédures de protection internationale et de retour forcé». [less ▲]

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See detailIdentification of a Leu-lle internalization motif within the cytoplasmic domain of the leukaemia inhibitory factor receptor
Thiel, S.; Behrmann, Iris UL; Timmermann, A. et al

in Biochemical Journal (1999), 339 (Pt 1)

Leukaemia inhibitory factor (LIF) signals via a heterodimeric receptor complex comprised of the LIF receptor (LIFR) and the interleukin (IL)-6 signal transducer gp130. Upon binding to its cognate receptor ... [more ▼]

Leukaemia inhibitory factor (LIF) signals via a heterodimeric receptor complex comprised of the LIF receptor (LIFR) and the interleukin (IL)-6 signal transducer gp130. Upon binding to its cognate receptor LIF is internalized. In this study, we show that the LIFR is endocytosed independently of gp130. By using a heterochimaeric receptor system we identified a dileucine-based internalization motif within the cytoplasmic domain of the LIFR. Our findings suggest that a heterodimeric LIFR/gp130 complex and homodimeric gp130/gp130 complex are endocytosed via distinct internalization signals. [less ▲]

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See detailIdentification of a novel BBS gene (BBS12) highlights the major role of a vertebrate-specific branch of chaperonin-related proteins in Bardet-Biedl syndrome.
Stoetzel, Corinne; Muller, Jean; Laurier, Virginie et al

in American Journal of Human Genetics (2007), 80(1), 1-11

Bardet-Biedl syndrome (BBS) is primarily an autosomal recessive ciliopathy characterized by progressive retinal degeneration, obesity, cognitive impairment, polydactyly, and kidney anomalies. The disorder ... [more ▼]

Bardet-Biedl syndrome (BBS) is primarily an autosomal recessive ciliopathy characterized by progressive retinal degeneration, obesity, cognitive impairment, polydactyly, and kidney anomalies. The disorder is genetically heterogeneous, with 11 BBS genes identified to date, which account for ~70% of affected families. We have combined single-nucleotide-polymorphism array homozygosity mapping with in silico analysis to identify a new BBS gene, BBS12. Patients from two Gypsy families were homozygous and haploidentical in a 6-Mb region of chromosome 4q27. FLJ35630 was selected as a candidate gene, because it was predicted to encode a protein with similarity to members of the type II chaperonin superfamily, which includes BBS6 and BBS10. We found pathogenic mutations in both Gypsy families, as well as in 14 other families of various ethnic backgrounds, indicating that BBS12 accounts for approximately 5% of all BBS cases. BBS12 is vertebrate specific and, together with BBS6 and BBS10, defines a novel branch of the type II chaperonin superfamily. These three genes are characterized by unusually rapid evolution and are likely to perform ciliary functions specific to vertebrates that are important in the pathophysiology of the syndrome, and together they account for about one-third of the total BBS mutational load. Consistent with this notion, suppression of each family member in zebrafish yielded gastrulation-movement defects characteristic of other BBS morphants, whereas simultaneous suppression of all three members resulted in severely affected embryos, possibly hinting at partial functional redundancy within this protein family. [less ▲]

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See detailIDENTIFICATION OF A RARE GENE VARIANT THAT IS ASSOCIATED WITH FAMILIAL ALZHEIMER DISEASE AND REGULATES APP EXPRESSION
Hartl, Daniela; May, Patrick UL; Gu, Wei UL et al

in Alzheimer's and Dementia: the Journal of the Alzheimer's Association (2017), 13(7, Supplement), 648

Background Genetic mutations leading to familial forms of Alzheimer disease (AD) have so far been reported for a few genes including APP, PSEN1 and PSEN2, UNC5C, PLD3, ABCA7, TTC3, and possibly ADAM10 ... [more ▼]

Background Genetic mutations leading to familial forms of Alzheimer disease (AD) have so far been reported for a few genes including APP, PSEN1 and PSEN2, UNC5C, PLD3, ABCA7, TTC3, and possibly ADAM10. With the advent of whole exome and whole genome sequencing approaches new genes and mutations are likely to be identified. Methods We analyzed the genetic cause of AD in a large multiplex family with an autosomal-dominant pattern of inheritance with LOAD. The family lacked pathogenic mutations of known AD genes. We performed whole-genome sequencing (WGS) in six family members (two affected and four unaffected) and prioritized rare, potential damaging, variants that segregated with disease. Variants were further characterized by subsequent molecular analyzes in human brain and cell culture models. Results We identified a single rare nonsynonymous variant co-segregating with AD. The mutation inhibits pro-protein cleavage and the formation of the active enzyme, thus leading to a loss-of-function of the gene. We further found a strong negative correlation between the identified gene and APP gene expression in human brain and in cells over-expressing the gene. The negative regulation of APP expression was only observed for the wt gene, but not for mutated forms, thus causing beside the loss of enzyme function a decoupling of both APPexpression and subsequent beta-amyloid formation. The identity of the gene will be presented on the conference. Conclusions This novel pathway strongly supports a causative association of the identified gene with the pathogenesis of AD. [less ▲]

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See detailIdentification of amino acid residues crucial for chemokine receptor dimerization.
Hernanz-Falcon, Patricia; Rodriguez-Frade, Jose Miguel; Serrano, Antonio et al

in Nature immunology (2004), 5(2), 216-23

Chemokines coordinate leukocyte trafficking by promoting oligomerization and signaling by G protein-coupled receptors; however, it is not known which amino acid residues of the receptors participate in ... [more ▼]

Chemokines coordinate leukocyte trafficking by promoting oligomerization and signaling by G protein-coupled receptors; however, it is not known which amino acid residues of the receptors participate in this process. Bioinformatic analysis predicted that Ile52 in transmembrane region-1 (TM1) and Val150 in TM4 of the chemokine receptor CCR5 are key residues in the interaction surface between CCR5 molecules. Mutation of these residues generated nonfunctional receptors that could not dimerize or trigger signaling. In vitro and in vivo studies in human cell lines and primary T cells showed that synthetic peptides containing these residues blocked responses induced by the CCR5 ligand CCL5. Fluorescence resonance energy transfer showed the presence of preformed, ligand-stabilized chemokine receptor oligomers. This is the first description of the residues involved in chemokine receptor dimerization, and indicates a potential target for the modification of chemokine responses. [less ▲]

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See detailIdentification of antiepilepitic drug-target interactions in public databases
Zizovic, Milena UL

Bachelor/master dissertation (2020)

Epilepsy is affecting people of all age and gender. The disease is traditionally treated with application of antiepileptic drugs. The therapy choice mostly relies on the differential diagnosis which is ... [more ▼]

Epilepsy is affecting people of all age and gender. The disease is traditionally treated with application of antiepileptic drugs. The therapy choice mostly relies on the differential diagnosis which is not always easy to be deducted. The treatment guidelines and antiepileptics are diverged according to major epilepsy types – generalized and focal epilepsy. However, prospective studies of antiepileptic drug effectiveness on the European cohort have shown that pharmacoresponse is patient dependent. In this thesis the antiepileptic drug prescription trend in this cohort in generalized and focal epilepsy patients was investigated. Moreover, the use of antiepileptics in the clinics from the EpiPGX database was compared to the findings of their use in general practices in the UK. To explain the difference in patient response to therapy AED-target interactions were investigated on the level of databases. In addition, with the discovery of new genes implicated in epilepsy and success of drugs of other groups such as quinidine and fampridine in treating the symptoms, the drug-repurposing found its application in epilepsy. In this thesis, quinidine-KCNT1 and fampridine-KCNA2 interactions were investigated in order to estimate the feasibility of using public databases to select drug-target interactions for clinical application. The investigation relied mainly on the ChEMBL database. However, these genes were not found among antiepileptic drug targets in the database. Quinidine and fampridine were assay associated with other AED targets. The results suggest that the therapy choice for treatment of rare forms of epilepsy underlined by channelopathies could be significantly expanded, but that database approach requires high level of drug-target selection criteria and text mining. [less ▲]

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See detailIdentification of Berezin-Toeplitz deformation quantization,
Karabegov, Alexander; Schlichenmaier, Martin UL

in Journal für die Reine und Angewandte Mathematik (2001), 540

Detailed reference viewed: 211 (0 UL)