Publications related to Sedimentation of macroscopic rigid knots and its relation to gel electrophoretic mobility of DNA knots

Related publications (24)

Mechanics of Physical Knots: From Filaments in Contact to Surgical Suturing

In this thesis, we study the mechanics of tight physical knots. Knots are omnipresent in surgery, climbing, and sailing, with disastrous consequences when the filament or the rope fails to perform its function. Even if the importance of mechanical analysis ...

EPFL2023

The shapes of physical trefoil knots

Pedro Miguel Nunes Pereira de Almeida Reis, John Maddocks, Paul Johanns, Tomohiko Sano, Paul Grandgeorge

We perform a compare-and-contrast investigation between the equilibrium shapes of physical and ideal trefoil knots, both in closed and open configurations. Ideal knots are purely geometric abstractions for the tightest configuration tied in a perfectly fle ...

2021

Site-Specific Protein Conjugation onto Fluorescent Single-Walled Carbon Nanotubes

Ardemis Anoush Boghossian, Vitalijs Zubkovs, Shang-Jung Wu, Nils Schürgers

Semiconducting single-walled carbon nanotubes (SWCNTs) are among the few photostable optical emitters that are ideal for sensing, imaging, drug delivery, and monitoring of protein activity. These applications often require strategies for immobilizing prote ...

2020

A smart low molecular weight gelator for the triple detection of copper (II), mercury (II), and cyanide ions in water resources

Rosario Scopelliti

Novel supramolecular gelators based on quinoline-indolin-2-one structure were synthesized. These gelators formed stable organogels in a mixture of DMSO/H2O (1:1). The scanning electron microscopy (SEM), IR and NMR spectroscopies, and rheological measuremen ...

ELSEVIER2020

Quantifying Guest-Host Dynamics in Supramolecular Assemblies to Analyze Their Robustness

Maartje Martina Cornelia Bastings, Eva Eugene Kurisinkal

The most basic function of synthetic microenvironments for tissue engineering is to act as a physical substrate for cell attachment, migration, and proliferation, similar to the natural cell environment. Functionalization of supramolecular materials with g ...

WILEY-V C H VERLAG GMBH2019

Equilibrium and Out-of-Equilibrium Adherence of Hydrogels against Polymer Brushes

Jennifer Mary Adrienne Alice Macron

At low pH, underwater adherence between poly(N,N-dimethylacrylamide) hydrogels and poly(acrylic acid) brushes is due to the formation of multiple hydrogen bonds. The effect of the key parameters controlling the formation of these interactions (contact time ...

American Chemical Society2018

Castles fall from inside: Evidence for dominant internal photo-catalytic mechanisms during treatment of Saccharomyces cerevisiae by photo-Fenton at near-neutral pH

César Pulgarin, Sami Rtimi, Stefanos Giannakis, Cristina del Socorro Lonfat

In this work, the antimicrobial effects of the photo-Fenton process on yeast cells were tested (Saccharomyces cerevisiae), an essential eukaryotic unicellular model of living cells. Near-neutral pH was used in all studies, while iron sulfate and iron citra ...

Elsevier2016

New analytical tools combining gel electrophoresis and mass spectrometry

Elena Tobolkina

Proteomics has been one of the main projects challenging biological and analytical chemists for many years. The separation, identification and quantification of all the proteins expressed within biological systems remain the main objectives of proteomics. ...

EPFL2014

A four-component organogel based on orthogonal chemical interactions

Kay Severin, Kurt Schenk, Nicolas Luisier

A thermoresponsive organogel was obtained by orthogonal assembly of four compounds using dynamic covalent boronate ester and imine bonds, as well as dative boron-nitrogen bonds. It is shown that the gel state can be disrupted or reinforced by chemicals whi ...

Royal Society of Chemistry2014

Proteins/peptides purification by a three-well OFFGEL electrophoresis with immobilized ultra narrow pH gradient gels

Hubert Girault, Liang Qiao, Fernando Cortes Salazar, Elena Tobolkina

Purification and desalting of protein and peptide samples by a three-well OFFGEL electrophoresis with immobilized ultra narrow pH gradient gels is proposed as a fast preparative strategy for proteomics. The gist of this strategy is to separate the proteins ...

Royal Society of Chemistry2014

Coupling Isoelectric Focusing Gel Electrophoresis to Mass Spectrometry by Electrostatic Spray Ionisation

Hubert Girault, Liang Qiao, Elena Tobolkina

Gel electrophoresis has been used for decades as a high-resolution separation technique for proteins and protein isomers, but limited in the coupling with MS because of low throughput and poor automaticity compared with LC-MS. In this work, we have develop ...

American Chemical Society2013

The molecular mechanisms of antimetastatic ruthenium compounds explored through DIGE proteomics

Paul Joseph Dyson, Angela Casini

DIGE (difference in gel electrophoresis) proteomics is exploited here to gain insight into the molecular mechanisms of two established ruthenium-based antimetastatic agents, namely trans-[tetrachloro (DMSO) (imidazole)ruthenate(III)] (NAMI-A) and [Ru(eta(6 ...

Elsevier Science Inc2013

From food to physiology characterization and in vitro digestion of milk products and investigation of postprandial metabolism and inflammation after a high-fat meal intake in a human nutrition intervention study

Flurina Schwander

According to the World Health Organization worldwide obesity has more than doubled since 1980. The World health statistics 2012 report shows that one in six adults is obese, one in ten diabetic and one in three has a raised blood pressure. Overweight and o ...

EPFL2013

Development of Electrokinetically Based Two-Dimensional Separation Methodologies for Proteomic Studies

Mohammad Reza Pourhaghighi

Proteomic studies require analytical methods capable of separating, identifying and quantifying thousands of proteins. Consequently, developing separation methodologies with high resolving power necessary to separate complex protein samples prior to protei ...

EPFL2012

Metabolization of [Ru(η6-C6H5CF3)(pta)Cl2]: a cytotoxic RAPTA-type complex with a strongly electron withdrawing arene ligand

Paul Joseph Dyson, Christian Hartinger, Anna Katherine Renfrew

The anticancer ruthenium-arene compd. [Ru(η6-C6H5CF3)(pta)Cl2] (pta = 1,3,5-triaza-7-phosphatricyclo[3.3.1.1]decane), termed RAPTA-CF3, with the electron-withdrawing α,α,α-trifluorotoluene ligand, is one of the most cytotoxic RAPTA compds. known. To ration ...

Springer2010

Transient Gene Expression in HEK-293E Cells for Recombinant Protein Production : Process Characterization towards GMP Approval

The growing demand of biopharmaceutical products is boosting the market for therapeutic recombinant proteins (r-proteins). More than half of the 140 r-proteins that have gained approval for human therapeutic use are manufactured in mammalian cells that mak ...

EPFL2010

Ideal knots and other packing problems of tubes

This thesis concerns optimal packing problems of tubes, or thick curves, where thickness is defined as follows. Three points on a closed space curve define a circle. Taking the infimum over all radii of pairwise-distinct point triples defines the thickness ...

EPFL2010

Computation and visualization of ideal knot shapes

We investigate numerical simulations and visualizations of the problem of tying a knot in a piece of rope. The goal is to use the least possible rope of a fixed, prescribed radius to tie a particular knot, e.g. a trefoil, a figure eight, and so on. The rop ...

EPFL2010

Tailoring hydrogel degradation and drug release via neighboring amino acid-controlled ester hydrolysis

Jeffrey Alan Hubbell, Matthias Lütolf, Yun Suk Jo

We present a versatile scheme to rationally modulate the hydrolysis rate of ester bonds in hydrophilic polymer networks via adjacent charged amino acids. As soluble model systems, two cysteine-bearing oligopeptides containing either positively charged argi ...

2009

Influence of Structural Variation on the Anticancer Activity of RAPTA-Type Complexes: ptn versus pta

Paul Joseph Dyson, Christian Hartinger, Alexey Nazarov, Anna Katherine Renfrew, Andrew Douglas Phillips

[M(η6-arene)(ptn)Cl]X (M = Ru, Os; arene = p-cymene, benzene, toluene, hexamethylbenzene; ptn = 3,7-dimethyl-7-phospha-1,3,5-triazabicyclo[3.3.1]nonane; X = Cl-, BF4-) were prepd. and characterized spectroscopically. X-ray diffraction was addnl. used to ch ...

2009