Small RNA molecules have an important role in gene regulation and RNA silencing therapy, but it is challenging to detect these molecules without the use of time-consuming radioactive labelling assays or error-prone amplification methods. Here, we present a platform for the rapid electronic detection of probe-hybridized microRNAs from cellular RNA. In this platform, a target microRNA is first hy...

Nanopore sequencing has the potential to become a fast and low-cost DNA sequencing platform. An ionic current passing through a small pore would directly map the sequence of single stranded DNA (ssDNA) driven through the constriction. The pore protein, MspA, derived from Mycobacterium smegmatis, has a short and narrow channel constriction ideally suited for nanopore sequencing. To study MspA's ...

We report graphene nanopores with integrated optical antennae. We demonstrate that a nanometer-sized heated spot created by photon-to-heat conversion of a gold nanorod resting on a graphene membrane forms a nanoscale pore with a self-integrated optical antenna in a single step. The distinct plasmonic traits of metal nanoparticles, which have a unique capability to concentrate light into nanosca...

At its core, a nanopore detector has a nanometer-scale biological membrane across which a voltage is applied. The voltage draws a DNA molecule into an α-hemolysin channel in the membrane. Consequently, a distinctive channel current blockade signal is created as the molecule flexes and interacts with the channel. This flexing of the molecule is characterized by different blockade levels in the c...

The charge of a DNA molecule is a crucial parameter in many DNA detection and manipulation schemes such as gel electrophoresis and lab-on-a-chip applications. Here, we study the partial reduction of the DNA charge due to counterion binding by means of nanopore translocation experiments and all-atom molecular dynamics (MD) simulations. Surprisingly, we find that the translocation time of a DNA m...

Biological nanopores are a class of membrane proteins that open nanoscale water conduits in biological membranes. When they are reconstituted in artificial membranes and a bias voltage is applied across the membrane, the ionic current passing through individual nanopores can be used to monitor chemical reactions, to recognize individual molecules and, of most interest, to sequence DNA. In addit...

Translocation dynamics of nanoparticles permeating through the nanopore in an n-Si semiconductor membrane is studied. With the use of Brownian Dynamics to describe the motion of the charged nanoparticles in the self-consistent membrane-electrolyte electrostatic potential, we asses the possibility of using our voltage controlled membrane for the macroscopic filtering of the charged nanoparticles...

With the aim of developing a DNA sequencing methodology, we theoretically examine the feasibility of using nanoplasmonics to control the translocation of a DNA molecule through a solid-state nanopore and to read off sequence information using surface-enhanced Raman spectroscopy. Using molecular dynamics simulations, we show that high-intensity optical hot spots produced by a metallic nanostruct...

We explore the impact of thermal fluctuations on nanofluidic transport. We develop a generic description of the stochastic motion of a fluid confined in a nanopore, on the basis of the fluctuating hydrodynamics framework. The center of mass of the confined fluid is shown to perform a non-markovian random walk, whose diffusion coefficient depends on the nanopore geometrical characteristics and b...

With asymptotic and numerical analyses, we systematically study the influence of slip length and access Ohmic resistance (due to pore-end field focusing and concentration polarization) on the energy conversion efficiency of pressure-driven electrolyte flow through a charged nanopore. Hydrodynamic slip reduces the percent of energy dissipated by viscous dissipation but, through electro-osmotic c...