Geometric local invariants and pure three-qubit states

We explore a geometric approach to generating local SU(2) and $SL(2,\mathbb{C})$ invariants for a collection of qubits inspired by lattice gauge theory. Each local invariant or 'gauge' invariant is associated to a distinct closed path (or plaquette) joining some or all of the qubits. In lattice gauge theory, the lattice points are the discrete space-time points, the transformations between the points of the lattice are defined by parallel transporters and the gauge invariant observable associated to a particular closed path is given by the Wilson loop. In our approach the points of the lattice are qubits, the link-transformations between the qubits are defined by the correlations between them and the gauge invariant observable, the local invariants associated to a particular closed path are also given by a Wilson loop-like construction. The link transformations share many of the properties of parallel transporters although they are not undone when one retraces one's steps through the lattice. This feature is used to generate many of the invariants. We consider a pure three qubit state as a test case and find we can generate a complete set of algebraically independent local invariants in this way, however the framework given here is applicable to mixed states composed of any number of $d$ level quantum systems. We give an operational interpretation of these invariants in terms of observables.Comment: 9 pages, 3 figure

Entropy as a function of Geometric Phase

We give a closed-form solution of von Neumann entropy as a function of geometric phase modulated by visibility and average distinguishability in Hilbert spaces of two and three dimensions. We show that the same type of dependence also exists in higher dimensions. We also outline a method for measuring both the entropy and the phase experimentally using a simple Mach-Zehnder type interferometer which explains physically why the two concepts are related.Comment: 19 pages, 7 figure

Direct estimations of linear and non-linear functionals of a quantum state

We present a simple quantum network, based on the controlled-SWAP gate, that can extract certain properties of quantum states without recourse to quantum tomography. It can be used used as a basic building block for direct quantum estimations of both linear and non-linear functionals of any density operator. The network has many potential applications ranging from purity tests and eigenvalue estimations to direct characterization of some properties of quantum channels. Experimental realizations of the proposed network are within the reach of quantum technology that is currently being developed.Comment: This paper supersedes the paper quant-ph/0112073, titled "Universal Quantum Estimator". We emphasise the estimation of linear and non-linear functionals of a quantum stat

Biomarker-based prediction of inflammatory bowel disease-related colorectal cancer: a case–control study

Regular colonoscopic surveillance for detection of dysplasia is recommended in longstanding inflammatory bowel disease (IBD), however, its sensitivity is disputed. Screening accuracy may increase by using a biomarker-based surveillance strategy.A case-control study was performed to determine the prognostic value of DNA ploidy and p53 in IBD-related neoplasia. Cases with IBD-related colorectal cancer (CRC), detected in our surveillance program between 1985-2008, were selected and matched with two controls, for age, gender, disease characteristics, interval of follow-up, PSC, and previous surgery. Biopsies were assessed for DNA ploidy, p53, grade of inflammation and neoplasia. Progression to neoplasia was analyzed with Cox regression analysis, adjusting for potentially confounding variables.Adjusting for age, we found statistically significant Hazard ratios (HR) between development of CRC, and low grade dysplasia (HR5.5; 95%CI 2.6-11.5), abnormal DNA ploidy (DNA index (DI) 1.06-1.34, HR4.7; 95%CI 2.9-7.8 and DI>1.34, HR6.6; 95%CI 3.7-11.7) and p53 immunopositivity (HR3.0; 95%CI 1.9-4.7) over time. When adjusting for all confounders, abnormal DNA ploidy (DI 1.06-1.34, HR4.7; 95%CI 2.7-7.9 and DI>1.34, HR5.0; 95%CI 2.5-10.0) and p53 immunopositivity (HR1.7; 95%CI 1.0-3.1) remained statistically significant predictive of neoplasia. In longstanding IBD, abnormal DNA ploidy and p53 immunopositivity are important risk factors of developing CRC. The yield of surveillance may potentially increase by adding these biomarkers to the routine assessment of biopsies

Berry and Pancharatnam Topological Phases of Atomic and Optical Systems

Theoretical and experimental studies of Berry and Pancharatnam phases are reviewed. Basic elements of differential geometry are presented for understanding the topological nature of these phases. The basic theory analyzed by Berry in relation to magnetic monopoles is presented. The theory is generalized to nonadiabatic processes and to noncyclic Pancharatnam phases. Different systems are discussed including polarization optics, n-level atomic systems, neutron interferometry and molecular topological phases.Comment: Review article,72 pages, 186 reference

Pharmacogenetics: data, concepts and tools to improve drug discovery and drug treatment

Variation in the human genome is a most important cause of variable response to drugs and other xenobiotics. Susceptibility to almost all diseases is determined to some extent by genetic variation. Driven by the advances in molecular biology, pharmacogenetics has evolved within the past 40 years from a niche discipline to a major driving force of clinical pharmacology, and it is currently one of the most actively pursued disciplines in applied biomedical research in general. Nowadays we can assess more than 1,000,000 polymorphisms or the expression of more than 25,000 genes in each participant of a clinical study – at affordable costs. This has not yet significantly changed common therapeutic practices, but a number of physicians are starting to consider polymorphisms, such as those in CYP2C9, CYP2C19, CYP2D6, TPMT and VKORC1, in daily medical practice. More obviously, pharmacogenetics has changed the practices and requirements in preclinical and clinical drug research; large clinical trials without a pharmacogenomic add-on appear to have become the minority. This review is about how the discipline of pharmacogenetics has evolved from the analysis of single proteins to current approaches involving the broad analyses of the entire genome and of all mRNA species or all metabolites and other approaches aimed at trying to understand the entire biological system. Pharmacogenetics and genomics are becoming substantially integrated fields of the profession of clinical pharmacology, and education in the relevant methods, knowledge and concepts form an indispensable part of the clinical pharmacology curriculum and the professional life of pharmacologists from early drug discovery to pharmacovigilance

Trait‐based analysis of subpolar North Atlantic phytoplankton and plastidic ciliate communities using automated flow cytometer

Plankton are an extremely diverse and polyphyletic group, exhibiting a large range in morphological and physiological traits. Here, we apply automated optical techniques, provided by the pulse‐shape recording automated flow cytometer—CytoSense—to investigate trait variability of phytoplankton and plastidic ciliates in Arctic and Atlantic waters of the subpolar North Atlantic. We used the bio‐optical descriptors derived from the CytoSense (light scattering [forward and sideward] and fluorescence [red, yellow/green and orange from chlorophyll a, degraded pigments, and phycobiliproteins, respectively]) and translated them into functional traits to demonstrate ecological trait variability along an environmental gradient. Cell size was the master trait varying in this study, with large photosynthetic microplankton (> 20 μm in cell diameter), including diatoms as single cells and chains, as well as plastidic ciliates found in Arctic waters, while small‐sized phytoplankton groups, such as the picoeukaryotes (< 4 μm) and the cyanobacteria Synechococcus were dominant in Atlantic waters. Morphological traits, such as chain/colony formation and structural complexity (i.e., cellular processes, setae, and internal vacuoles), appear to favor buoyancy in highly illuminated and stratified Arctic waters. In Atlantic waters, small cell size and spherical cell shape, in addition to photo‐physiological traits, such as high internal pigmentation, offer chromatic adaptation for survival in the low nutrient and dynamic mixing waters of the Atlantic Ocean. The use of automated techniques that quantify ecological traits holds exciting new opportunities to unravel linkages between the structure and function of plankton communities and marine ecosystems