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Efficient and exact sampling of transition path ensembles on Markovian networks.
The problem of flickering trajectories in standard kinetic Monte Carlo (kMC) simulations prohibits sampling of the transition path ensembles (TPEs) on Markovian networks representing many slow dynamical processes of interest. In...
Platelet-primed interactions of coagulation and anticoagulation pathways in flow-dependent thrombus formation.
Sanne LN Brouns, Johanna P van Geffen, Elena Campello, Frauke Swieringa, Luca Spiezia, René van Oerle, Isabella Provenzale, Remco Verdoold, Richard W Farndale, Kenneth J Clemetson, Henri MH Spronk, Paola EJ van der Meijden, Rachel Cavill, Marijke JE Kuijpers, Elisabetta Castoldi, Paolo Simioni, Johan WM Heemskerk
Sep 09, 2020
In haemostasis and thrombosis, platelet, coagulation and anticoagulation pathways act together to produce fibrin-containing thrombi. We developed a microspot-based technique, in which we assessed platelet adhesion, platelet...
Quantitative Proteomics Analysis of Lytic KSHV Infection in Human Endothelial Cells Reveals Targets of Viral Immune Modulation.
HHV-8 KSHV NK cell receptor ligands herpesvirus host cell restriction factors lytic reactivation Proteomics Viral immune evasion Antigens Differentiation T-Lymphocyte Cell Line DNA-Directed DNA Polymerase Down-Regulation Endothelial Cells Gene Library Gene Ontology Genes Viral Genetic Testing Herpesvirus 8 Human Humans immunomodulation Kinetics Ligands Mutation Proteome Proteomics Sarcoma Kaposi Up-Regulation Viral Proteins Virus Activation eIF-2 Kinase
Discovery of holoenzyme-disrupting chemicals as substrate-selective CK2 inhibitors.
Irina Kufareva, Benoit Bestgen, Paul Brear, Renaud Prudent, Béatrice Laudet, Virginie Moucadel, Mohamed Ettaoussi, Celine F Sautel, Isabelle Krimm, Matthias Engel, Odile Filhol, Marc Le Borgne, Thierry Lomberget, Claude Cochet, Ruben Abagyan
Nov 03, 2020
CK2 is a constitutively active protein kinase overexpressed in numerous malignancies. Interaction between CK2α and CK2β subunits is essential for substrate selectivity. The CK2α/CK2β interface has been previously targeted by...
Adenosine Triphosphate Binding Sites Casein Kinase II Catalytic Domain Cell Line Tumor Cell Movement Cell Proliferation Crystallography X-Ray Holoenzymes Humans Kinetics Molecular Docking Simulation Peptides Phosphorylation Protein Kinase Inhibitors Protein Subunits Substrate Specificity Surface Plasmon Resonance
The role of temperature, pH and nutrition in process development of the unique oleaginous yeast <i>Metschnikowia pulcherrima</i>
BACKGROUND: Lipids produced from oleaginous yeasts are a promising alternative to terrestrial oils. Despite promising cellular yields of lipid however, an industrial process remains elusive. One key processing bottleneck is the...
Dynamic self-assembly of microscale rotors and swimmers.
Megan S Davies Wykes, Jérémie Palacci, Takuji Adachi, Leif Ristroph, Xiao Zhong, Michael D Ward, Jun Zhang, Michael J Shelley
Dec 12, 2018
Biological systems often involve the self-assembly of basic components into complex and functioning structures. Artificial systems that mimic such processes can provide a well-controlled setting to explore the principles...
Estimation of vertical walking ground reaction force in real-life environments using single IMU sensor
Monitoring natural human gait in real-life environments is essential in many applications, including quantification of disease progression, monitoring the effects of treatment, and monitoring alteration of performance...
Accelerometry Kinetics /dk/atira/pure/subjectarea/asjc/1300/1304 name=Biophysics /dk/atira/pure/subjectarea/asjc/2700/2732 name=Orthopedics and Sports Medicine /dk/atira/pure/subjectarea/asjc/2200/2204 name=Biomedical Engineering /dk/atira/pure/subjectarea/asjc/2700/2742 name=Rehabilitation /dk/atira/pure/sustainabledevelopmentgoals/good_health_and_well_being name=SDG 3 - Good Health and Well-being
Switchable slow cellular conductances determine robustness and tunability of network states.
Neuronal information processing is regulated by fast and localized fluctuations of brain states. Brain states reliably switch between distinct spatiotemporal signatures at a network scale even though they are composed of...
A single-chain variable fragment intrabody prevents intracellular polymerization of Z α1-antitrypsin while allowing its antiproteinase activity.
Adriana Ordóñez, Juan Pérez, Lu Tan, Jennifer A Dickens, Neda Motamedi-Shad, James A Irving, Imran Haq, Ugo Ekeowa, Stefan J Marciniak, Elena Miranda, David A Lomas
May 18, 2018
Mutant Z α1-antitrypsin (E342K) accumulates as polymers within the endoplasmic reticulum (ER) of hepatocytes predisposing to liver disease, whereas low levels of circulating Z α1-antitrypsin lead to emphysema by loss of...
Liver Disease Monoclonal antibody scFv intrabody serpin polymer Animals Base Sequence COS Cells Chlorocebus aethiops Endoplasmic Reticulum Humans Immunoblotting Intracellular Space Kinetics Leukocyte Elastase Mice Inbred BALB C Molecular Sequence Data Mutation Polymerization Protease Inhibitors Single-Chain Antibodies alpha 1-Antitrypsin
Expression of functional inhibitory neurotransmitter transporters GlyT1, GAT-1, and GAT-3 by astrocytes of inferior colliculus and hippocampus.
Elsa Ghirardini, Simon L Wadle, Vanessa Augustin, Jasmin Becker, Sina Brill, Julia Hammerich, Gerald Seifert, Jonathan Stephan
Jun 25, 2018
Neuronal inhibition is mediated by glycine and/or GABA. Inferior colliculus (IC) neurons receive glycinergic and GABAergic inputs, whereas inhibition in hippocampus (HC) predominantly relies on GABA. Astrocytes heterogeneously...
Mechanotransduction
Ewa K Paluch, Celeste M Nelson, Nicolas Biais, Ben Fabry, Jens Moeller, Beth L Pruitt, Carina Wollnik, Galina Kudryasheva, Florian Rehfeldt, Walter Federle
Apr 15, 2021
Mechanotransduction - how cells sense physical forces and translate them into biochemical and biological responses - is a vibrant and rapidly-progressing field, and is important for a broad range of biological phenomena. This...
Insights into Coupled Folding and Binding Mechanisms from Kinetic Studies.
IDP biophysics coupled folding and binding Electrostatics Kinetics phi-value protein dynamic protein electrostatics Protein Folding protein-protein interactions residual structure signaling Apoptosis Regulatory Proteins CREB-Binding Protein Cyclic AMP Response Element-Binding Protein Humans Hydrophobic and Hydrophilic Interactions Intrinsically Disordered Proteins Kinetics Molecular Dynamics Simulation Myeloid Cell Leukemia Sequence 1 Protein Protein Binding Protein Folding Protein Interaction Domains and Motifs Proto-Oncogene Proteins Signal Transduction Static Electricity Thermodynamics
Early first trimester uteroplacental flow and the progressive disintegration of spiral artery plugs
STUDY QUESTION: Does the use of a vascular contrast agent facilitate earlier detection of maternal flow to the placental intervillous space (IVS) in the first trimester of pregnancy? SUMMARY ANSWER: Microvascular filling of the...
Effect of Ionic Strength on Thioflavin-T Affinity to Amyloid Fibrils and Its Fluorescence Intensity.
The formation of amyloid fibrils is linked to multiple neurodegenerative disorders, including Alzheimer's and Parkinson's disease. Despite years of research and countless studies on the topic of such aggregate formation, as well...
Pressure and Chemical Unfolding of an α-Helical Bundle Protein
Cécile Dubois, Vicente J Planelles-Herrero, Camille Tillatte-Tripodi, Stéphane Delbecq, Léa Mammri, Elena M Sirkia, Virginie Ropars, Christian Roumestand, Philippe Barthe
Mar 31, 2021
When combined with NMR spectroscopy, high hydrostatic pressure is an alternative perturbation method used to destabilize globular proteins that has proven to be particularly well suited for exploring the unfolding energy...
NMR high hydrostatic pressure Protein Folding Thermodynamic stability α-helical bundle Adaptor Proteins Signal Transducing Humans Kinetics Magnetic Resonance Spectroscopy Models Molecular Protein Conformation Protein Conformation alpha-Helical Protein Denaturation Protein Domains Protein Unfolding Temperature Thermodynamics
Tyrosine 192 within the SH2 domain of the Src-protein tyrosine kinase p56Lck regulates T-cell activation independently of Lck/CD45 interactions.
Matthias Kästle, Camilla Merten, Roland Hartig, Thilo Kaehne, Ardiyanto Liaunardy-Jopeace, Nadine M Woessner, Wolfgang W Schamel, John James, Susana Minguet, Luca Simeoni, Burkhart Schraven
Dec 22, 2020
Knock-in mice Lck PLA Signal Transduction T-cell activation TCR signaling Y192 Zap70 Amino Acid Sequence Animals Cell Line Tumor HEK293 Cells Humans Kinetics Leukocyte Common Antigens Lymphocyte Activation Lymphocyte Specific Protein Tyrosine Kinase p56(lck) Mice Inbred C57BL Phosphorylation Protein Conformation Receptors Antigen T-Cell Spleen Structure-Activity Relationship Substrate Specificity T-Lymphocytes Tyrosine ZAP-70 Protein-Tyrosine Kinase src Homology Domains
Universality of filamentous aggregation phenomena.
We use perturbative renormalization group theory to study the kinetics of protein aggregation phenomena in a unified manner across multiple timescales. Using this approach, we find that, irrespective of the specific molecular...
Review of real-time release testing of pharmaceutical tablets
Daniel Markl, Martin Warman, Melanie Dumarey, Eva-Lotta Bergman, Staffan Folestad, Zhenqi Shi, Leo Francis Manley, Daniel J Goodwin, J Axel Zeitler
Apr 22, 2020
In the last decade significant advances have been made in process analytical technologies and digital manufacturing of pharmaceutical oral solid dosage forms leading to enhanced product knowledge and process understanding. These...
The role of temperature, pH and nutrition in process development of the unique oleaginous yeast <i>Metschnikowia pulcherrima</i>
BACKGROUND: Lipids produced from oleaginous yeasts are a promising alternative to terrestrial oils. Despite promising cellular yields of lipid however, an industrial process remains elusive. One key processing bottleneck is the...
Athletic groin pain patients and healthy athletes demonstrate consistency in their movement strategy selection when performing multiple repetitions of a change of direction test
Objectives: To report the consistency in movement strategy selection in athletic groin pain patients and to assess whether there are differences in consistency between athletic groin pain patients and healthy athletes....
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