Publications related to Deoxyribozyme

Achieving high hybridization density at DNA biosensor surfaces using branched spacer and click chemistry

Sandrine Gerber, Alireza Kavand, Mounir Driss Mensi, Lucas Mayoraz, Perrine Agnes Edith Robin

The COVID-19 pandemic has highlighted the necessity to develop fast, highly sensitive and selective virus detection methods. Surface-based DNA-biosensors are interesting candidates for this purpose. Functionalization of solid substrates with DNA must be pr ...

2023

Dynamic Chromatin Invasion and Remodeling by the Transcription Factor Rap1

Maxime Nicolas Mivelaz

Pioneer transcription factors (PTF) are a subset of transcription factors with nucleosome-binding properties allowing them to bind specific sequences in condensed chromatin. Although the biological functions of PTFs including target genes and epigenetic ch ...

EPFL2021

High-throughput cryogenic spectroscopy for glycan analysis

Thomas Rizzo, Ahmed Ben Faleh, Stephan Warnke, Valeriu Scutelnic

A method for analyzing a plurality of molecules with cryogenic vibrational spectroscopy including the steps of providing a packet of molecules in a ionized form, injecting the packet into an ion mobility section, spatially separating the ions of the packet ...

2019

Segregation of Nickel/Iron Bimetallic Particles from Lanthanum Doped Strontium Titanates to Improve Sulfur Stability of Solid Oxide Fuel Cell Anodes

Oliver Kröcher, Davide Ferri, Patrick Simon Steiger, Andre Heel

Perovskite derived Ni catalysts offer the remarkable benefit of regeneration after catalyst poisoning or Ni particle growth through the reversible segregation of Ni from the perovskite-type oxide host. Although this property allows for repeated catalyst re ...

2019

The memristive effect as a novelty in drug monitoring

Giovanni De Micheli, Sandro Carrara, Ioulia Tzouvadaki, Nima Aliakbarinodehi

Nanoscale devices exhibiting memristive properties show great potential in a plethora of applications. In this work, memristive nanowires are presented for the first time as ideal candidates for absolutely novel, ultrasensitive, highly specific and selecti ...

2017

Who Activates the Nucleophile in Ribozyme Catalysis? An Answer from the Splicing Mechanism of Group II Introns

Ursula Röthlisberger, Giulia Palermo, Lorenzo Casalino

Group II introns are Mg2+-dependent ribozymes that are considered to be the evolutionary ancestors of the eukaryotic spliceosome, thus representing an ideal model system to understand the mechanism of conversion of premature messenger RNA (mRNA) into matur ...

2016

Label-Free Ultrasensitive Memristive Aptasensor

Giovanni De Micheli, Sandro Carrara, Ioulia Tzouvadaki

We present the very first worldwide ever-reported electrochemical biosensor based on a memristive effect and DNA aptamers. This novel device is developed to propose a completely new approach in cancer diagnostics. In this study, an affinity-based technique ...

American Chemical Society2016

More DNA–Aptamers for Small Drugs: A Capture–SELEX Coupled with Surface Plasmon Resonance and High-Throughput Sequencing

Carlotta Guiducci, Fabio Mario Spiga

To address limitations in the production of DNA aptamers against small molecules, we introduce a DNA-based capture-SELEX (systematic evolution of ligands by exponential enrichment) protocol with long and continuous randomized library for more flexibility, ...

ACS Publications2015

Impact of organic-ligand shell on catalytic performance of colloidal Pd nanoparticles for alkyne gas-phase hydrogenation

Lioubov Kiwi, Fernando Cardenas Lizana, Daniel André Samuel Lamey, Irina Prokopyeva

Monodispersed Pd nanoparticles (NPs) have been prepared by colloidal technique and deposited on a structured support consisting of carbon nanofibers (CNF) grown on sintered metal fibres (SMF). The surface properties of Pd NPs have been fine-tuned by (i) ch ...

Elsevier2014

A yeast one-hybrid and microfluidics-based pipeline to map mammalian gene regulatory networks

Bart Deplancke, Alina Isakova, Sebastian Martin Waszak, Jovan Simicevic, Sunil Kumar Raghav, Antonina Iagovitina, Carine Delattre-Gubelmann, Jean-Daniel Feuz

The comprehensive mapping of gene promoters and enhancers has significantly improved our understanding of how the mammalian regulatory genome is organized. An important challenge is to elucidate how these regulatory elements contribute to gene expression b ...

Nature / European Molecular Biology Organization2013

Nanopore sensing of single molecules application to RNAP-DNA complexes, fabrication of graphene-nanopore devices and translocation algorithm analysis

Camille Alice Raillon

Nanopore sensing is a single-molecule technique that allows to probe the nano-bio-world with accuracy. It is a non-invasive technique, which means that the molecule of interest does not need to be labeled to be detected by the nanopore. Most of the studies ...

EPFL2012

Role of Environment for Catalysis of the DNA Repair Enzyme MutY

Ursula Röthlisberger, Jeremy Samuel Arey, Elizabeth Claire Brunk

Control of the N-glycosylase reaction by the DNA repair enzyme, MutY, entails the organization of solvent molecules. Classical molecular dynamics and QM/MM simulations were used to investigate the solvent and environment effects contributing to catalysis. ...

2012

Rational Design of Pd-Based Catalysts for Selective Alkyne Hydrogenations

Rocio Micaela Crespo Quesada

Traditionally, the search for active and selective catalysts involved a rather tedious "hit-and-miss" approach in which hundreds, if not thousands catalysts were tested until the optimal substance was identified. With the advancing theoretical understandin ...

EPFL2011

Microfluidic assays for DNA manipulation based on a block copolymer immobilization strategy

Demetri Psaltis, Andreas Vasdekis

Methods to manipulate and visualize isolated DNA and oligonucleotide strands are important for investigation of their biophysics as well as their interactions with proteins. Herein, we report such a method by combining a block copolymer surface functionali ...

American Chemical Society2010

Reevaluation of telomerase inhibition by quadruplex ligands and their mechanisms of action

Joachim Lingner

Quadruplex ligands are often considered as telomerase inhibitors. Given the fact that some of these molecules are present in the clinical setting, it is important to establish the validity of this assertion. To analyze the effects of these compounds, we us ...

National Academy of Sciences2007

DNA biosensor using fluorescence microscopy and impedance spectroscopy

Martinus Gijs, Daniel Berdat

Two types of DNA biosensors are presented. Both sensing principles are demonstrated using synthetic oligomer single-stranded DNA (ssDNA) with concentrations in the micromolar range. A first sensor type is based on the detection of fluorescently labeled ssD ...

2006

Kinetics of RNA Refolding in Dynamic Equilibrium by 1H-Detected 15N Exchange NMR Spectroscopy

Geoffrey Bodenhausen, Philipp Wenter

By implementing new NMR methods that were designed to map very slow exchange processes we have investigated and characterized the refolding kinetics of a thermodynamically stable 34mer RNA sequence in dynamic equilibrium. The RNA sequence was designed to u ...

2006

Preparation of aminoacylated tRNAs and analogues

The ribosome-mediated, site-specific incorporation of unnatural amino acids into proteins is a powerful tool for creating protein analogues with specific steric, chemical, electronic or spectroscopic properties, in vitro and in vivo. The required aminoacyl ...

EPFL2006