Browsing Ciències Bàsiques by Subject "57"
Now showing items 1-20 of 26
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2P-111 Stochastic resonance in DNA hairpins(The 46th Annual Meeting of the Biophysical Society of Japan)
(Seibutsu Butsuri, 2008) -
A hybrid approach to assess the structural impact of long noncoding RNA mutations uncovers key NEAT1 interactions in colorectal cancer
(IUBMB Life, 2023)Long noncoding RNAs (lncRNAs) are emerging players in cancer and they entail potential as prognostic biomarkers or therapeutic targets. Earlier studies have identified somatic mutations in lncRNAs that ... -
The ADP-ribose hydrolase NUDT5 is important for DNA repair
(Cell Reports, 2022-12)DNA damage leads to rapid synthesis of poly(ADP-ribose) (pADPr), which is important for damage signaling and repair. pADPr chains are removed by poly(ADP-ribose) glycohydrolase (PARG), releasing free ... -
ADP-ribose–derived nuclear ATP synthesis by NUDIX5 is required for chromatin remodeling
(Science, 2016)Key nuclear processes in eukaryotes, including DNA replication, repair, and gene regulation, require extensive chromatin remodeling catalyzed by energy-consuming enzymes. It remains unclear how the ATP ... -
Chronic full-band recordings with graphene microtransistors as neural interfaces for discrimination of brain states
(Nanoscale Horizons, 2024)Brain states such as sleep, anesthesia, wakefulness, or coma are characterized by specific patterns of cortical activity dynamics, from local circuits to full-brain emergent properties. We previously ... -
Derivation of nearest-neighbor DNA parameters in magnesium from single molecule experiments
(Nucleic Acids Research, 2017)DNA hybridization is an essential molecular reaction in biology with many applications. The nearest-neighbor (NN) model for nucleic acids predicts DNA thermodynamics using energy values for the different ... -
Dynamic force spectroscopy of DNA hairpins: I. Force kinetics and free energy landscapes
(Journal of Statistical Mechanics: Theory and Experiment, 2009)We investigate the thermodynamics and kinetics of DNA hairpins that fold/unfold under the action of applied mechanical force. We introduce the concept of the molecular free energy landscape and derive ... -
Dynamic force spectroscopy of DNA hairpins: II. Irreversibility and dissipation
(Journal of Statistical Mechanics: Theory and Experiment, 2009)We investigate irreversibility and dissipation in single molecules that cooperatively fold/unfold in a two-state manner under the action of mechanical force. We apply path thermodynamics to derive ... -
Engineering a genome-reduced bacterium to eliminate Staphylococcus aureus biofilms in vivo
(Molecular Systems Biology, 2021)Bacteria present a promising delivery system for treating human diseases. Here, we engineered the genome-reduced human lung pathogen Mycoplasma pneumoniae as a live biotherapeutic to treat biofilm-associated ... -
EvolClustDB: exploring eukaryotic gene clusters with evolutionarily conserved genomic neighbourhoods
(Journal of Molecular Biology, 2023)Conservation of gene neighbourhood over evolutionary distances is generally indicative of shared regulation or functional association among genes. This concept has been broadly exploited in prokaryotes ... -
Functional characterization of a novel non-coding mutation “Ghent +49A > G” in the iron-responsive element of L-ferritin causing hereditary hyperferritinaemia-cataract syndrome
(Scientific Reports, 2017)Hereditary hyperferritinaemia-cataract syndrome (HHCS) is a rare disorder usually caused by heterozygous mutations in the iron-responsive element (IRE) in the 5′ untranslated region (5′UTR) of the ... -
Hormone-induced repression of genes requires BRG1-mediated H1.2 deposition at target promoters
(The EMBO Journal, 2016)Eukaryotic gene regulation is associated with changes in chromatin compaction that modulate access to DNA regulatory sequences relevant for transcriptional activation or repression. Although much is ... -
Investigating the thermodynamics of small biosystems with optical tweezers
(Physica E: Low-dimensional Systems and Nanostructures, 2010)We present two examples of how single-molecule experimental techniques applied to biological systems can give insight into problems within the scope of equilibrium and nonequilibrium mesoscopic ... -
Iron Regulation and the Cell Cycle: identification of an iron-responsive element in the 3′-untranslated region of human cell division cycle 14a mrna by a refined microarray-based screening strategy
(The Journal of Biological Chemistry, 2006)Iron regulatory proteins (IRPs) 1 and 2 post-transcriptionally control mammalian iron homeostasis by binding to iron-responsive elements (IREs), conserved RNA stem-loop structures located in the 5′- or ... -
LoxTnSeq: random transposon insertions combined with cre/lox recombination and counterselection to generate large random genome reductions
(Microbial Biotechnology, 2021)The removal of unwanted genetic material is a key aspect in many synthetic biology efforts and often requires preliminary knowledge of which genomic regions are dispensable. Typically, these efforts are ... -
Measurement of work in single-molecule pulling experiments
(The Journal of Chemical Physics, 2009)A main goal of single-molecule experiments is to evaluate equilibrium free energy differences by applying fluctuation relations to repeated work measurements along irreversible processes. We quantify ... -
Modeling cell adhesion and proliferation: a cellular-automata based approach
(Advanced Modeling and Simulation in Engineering Sciences, 2015)Background: Cell adhesion is a process that involves the interaction between the cell membrane and another surface, either a cell or a substrate. Unlike experimental tests, computer models can simulate ... -
New partners identified by mass spectrometry assay reveal functions of NCAM2 in neural cytoskeleton organization
(International Journal of Molecular Sciences, 2021)Neuronal cell adhesion molecule 2 (NCAM2) is a membrane protein with an important role in the morphological development of neurons. In the cortex and the hippocampus, NCAM2 is essential for proper ... -
Principles of miRNA/miRNA* function in plant MIRNA processing
(Nucleic Acids Research, 2024)MicroRNAs (miRNAs) are essential regulators of gene expression, defined by their unique biogenesis, which requires the precise excision of the small RNA from an imperfect fold-back precursor. Unlike ... -
Probing RNA structural landscapes across Candida yeast genomes
(Frontiers in Microbiology, 2024)Understanding the intricate roles of RNA molecules in virulence and host-pathogen interactions can provide valuable insights into combatting infections and improving human health. Although much progress ...