Genetic testing approaches for hereditary breast cancer: Perspectives from a private diagnostic laboratory.

Breast cancer is highly prevalent in South Africa, and up to 10% of breast cancer cases may be hereditary. The landscape of genetic testing options for hereditary breast cancer (HBC) has changed significantly over the past decade, and healthcare providers are faced with multiple options when referring breast cancer patients for genetic testing. We have performed a retrospective study of 3 years' worth of breast cancer genetic testing referrals to our laboratory. While Afrikaner and Ashkenazi Jewish founder screens may be appropriate as first-line tests in a limited subset of patients, we have shown that in the majority of cases it is more effective to adopt a multigene panel approach. While variants in the BRCA1 and BRCA2 genes still account for a significant proportion of cases, close to 40% of pathogenic variants were found in genes other than BRCA1 or BRCA2. There are many factors that healthcare providers should consider when requesting genetic testing for breast cancer patients and families, including family history, ancestral background, cost, medical aid scheme reimbursement and scope of testing. We summarise our findings and provide advantages and disadvantages of each approach, with the aim of assisting clinicians and genetic counsellors to make appropriate testing decisions.

Creating Complex Optical Longitudinal Polarization Structures.

In this Letter, we show that it is possible to structure the longitudinal polarization component of light. We illustrate our approach by demonstrating linked and knotted longitudinal vortex lines acquired upon nonparaxially propagating a tightly focused subwavelength beam. The remaining degrees of freedom in the transverse polarization components can be exploited to generate customized topological vector beams.

Spin-Orbit-Coupled Interferometry with Ring-Trapped Bose-Einstein Condensates.

We propose a method of atom interferometry using a spinor Bose-Einstein condensate with a time-varying magnetic field acting as a coherent beam splitter. Our protocol creates long-lived superpositional counterflow states, which are of fundamental interest and can be made sensitive to both the Sagnac effect and magnetic fields on the sub-µG scale. We split a ring-trapped condensate, initially in the m_{f}=0 hyperfine state, into superpositions of internal m_{f}=±1 states and condensate superflow, which are spin-orbit coupled. After interrogation, the relative phase accumulation can be inferred from a population transfer to the m_{f}=±1 states. The counterflow generation protocol is adiabatically deterministic and does not rely on coupling to additional optical fields or mechanical stirring techniques. Our protocol can maximize the classical Fisher information for any rotation, magnetic field, or interrogation time and so has the maximum sensitivity available to uncorrelated particles. Precision can increase with the interrogation time and so is limited only by the lifetime of the condensate.

Sagnac interferometry using bright matter-wave solitons.

We use an effective one-dimensional Gross-Pitaevskii equation to study bright matter-wave solitons held in a tightly confining toroidal trapping potential, in a rotating frame of reference, as they are split and recombined on narrow barrier potentials. In particular, we present an analytical and numerical analysis of the phase evolution of the solitons and delimit a velocity regime in which soliton Sagnac interferometry is possible, taking account of the effect of quantum uncertainty.

Controlled formation and reflection of a bright solitary matter-wave.

Bright solitons are non-dispersive wave solutions, arising in a diverse range of nonlinear, one-dimensional systems, including atomic Bose-Einstein condensates with attractive interactions. In reality, cold-atom experiments can only approach the idealized one-dimensional limit necessary for the realization of true solitons. Nevertheless, it remains possible to create bright solitary waves, the three-dimensional analogue of solitons, which maintain many of the key properties of their one-dimensional counterparts. Such solitary waves offer many potential applications and provide a rich testing ground for theoretical treatments of many-body quantum systems. Here we report the controlled formation of a bright solitary matter-wave from a Bose-Einstein condensate of (85)Rb, which is observed to propagate over a distance of ∼1.1 mm in 150 ms with no observable dispersion. We demonstrate the reflection of a solitary wave from a repulsive Gaussian barrier and contrast this to the case of a repulsive condensate, in both cases finding excellent agreement with theoretical simulations using the three-dimensional Gross-Pitaevskii equation.

Conical intersections in laboratory coordinates with ultracold molecules.

For two states of opposite parity that cross as a function of an external magnetic field, the addition of an electric field will break the symmetry and induce an avoided crossing. A suitable arrangement of fields may be used to create a conical intersection as a function of external spatial coordinates. We consider the effect of the resulting geometric phase for ultracold polar molecules. For a Bose-Einstein condensate in the mean-field approximation, the geometric phase effect induces stable states of persistent superfluid flow that are characterized by half-integer quantized angular momentum.

Bright matter-wave soliton collisions in a harmonic trap: regular and chaotic dynamics.

Collisions between bright solitary waves in the 1D Gross-Pitaevskii equation with a harmonic potential, which models a trapped atomic Bose-Einstein condensate, are investigated theoretically. A particle analogy for the solitary waves is formulated and shown to be integrable for a two-particle system. The extension to three particles is shown to support chaotic regimes. Good agreement is found between the particle model and simulations of the full wave dynamics, suggesting that the dynamics can be described in terms of solitons both in regular and chaotic regimes, presenting a paradigm for chaos in wave mechanics.

Quantum accelerator modes from the Farey tree.

We show that mode locking finds a purely quantum nondissipative counterpart in atom-optical quantum accelerator modes. These modes are formed by exposing cold atoms to periodic kicks in the direction of the gravitational field. They are anchored to generalized Arnol'd tongues, parameter regions where driven nonlinear classical systems exhibit mode locking. A hierarchy for the rational numbers known as the Farey tree provides an ordering of the Arnol'd tongues and hence of experimentally observed accelerator modes.

Gravity-sensitive quantum dynamics in cold atoms.

We subject a falling cloud of cold cesium atoms to periodic kicks from a sinusoidal potential created by a vertical standing wave of laser light. By controllably accelerating the potential, we show quantum accelerator mode dynamics to be highly sensitive to the effective gravitational acceleration when close to specific, resonant values. This quantum sensitivity to a control parameter is reminiscent of that associated with classical chaos and promises techniques for precision measurement.

Experimental observation of high-order quantum accelerator modes.

Using a freely falling cloud of cold cesium atoms periodically kicked by pulses from a vertical standing wave of laser light, we present the first experimental observation of high-order quantum accelerator modes. This confirms the recent prediction by Fishman, Guarneri, and Rebuzzini [Phys. Rev. Lett. 89, 084101 (2002)]]. We also show how these accelerator modes can be identified with the stable regions of phase space in a classical-like chaotic system, despite their intrinsically quantum origin.

Signatures of quantum stability in a classically chaotic system.

We experimentally and numerically investigate the quantum accelerator mode dynamics of an atom optical realization of the quantum delta-kicked accelerator, whose classical dynamics are chaotic. Using a Ramsey-type experiment, we observe interference, demonstrating that quantum accelerator modes are formed coherently. We construct a link between the behavior of the evolution's fidelity and the phase space structure of a recently proposed pseudoclassical map, and thus account for the observed interference visibilities.

Approaching classicality in quantum accelerator modes through decoherence.

We describe measurements of the mean energy of an ensemble of laser-cooled atoms in an atom optical system in which the cold atoms, falling freely under gravity, receive approximate delta-kicks from a pulsed standing wave of laser light. We call this system a "delta-kicked accelerator." Additionally, we can counteract the effect of gravity by appropriate shifting of the position of the standing wave, which restores the dynamics of the standard delta-kicked rotor. The presence of gravity (delta-kicked accelerator) yields quantum phenomena, quantum accelerator modes, which are markedly different from those in the case for which gravity is absent (delta-kicked rotor). Quantum accelerator modes result in a much higher rate of increase in the mean energy of the system than is found in its classical analog. When gravity is counteracted, the system exhibits the suppression of the momentum diffusion characteristic of dynamical localization. The effect of noise is examined and a comparison is made with simulations of both quantum-mechanical and classical versions of the system. We find that the introduction of noise results in the restoration of several signatures of classical behavior, although significant quantum features remain.

Uniting Bose-Einstein condensates in optical resonators.

The relative phase of two initially independent Bose-Einstein condensates can be laser cooled to unite the two condensates by putting them into a ring cavity and coupling them with an internal Josephson junction. First, we show that this phase cooling process already appears within a semiclassical model. We calculate the stationary states, find regions of bistable behavior, and suggest a Ramsey-type experiment to measure the buildup of phase coherence between the condensates. We also study quantum effects and imperfections of the system.