Poisson factorization for peer-based anomaly detection

Anomaly detection systems are a promising tool to identify compromised user credentials and malicious insiders in enterprise networks. Most existing approaches for modelling user behaviour rely on either independent observations for each user or on pre-defined user peer groups. A method is proposed based on recommender system algorithms to learn overlapping user peer groups and to use this learned structure to detect anomalous activity. Results analysing the authentication and process-running activities of thousands of users show that the proposed method can detect compromised user accounts during a red team exercise

Exploratory use of a Bayesian network process for translating stakeholder perceptions of water quality problems in a catchment in South Africa

Water resource management is complex, and should ideally be a co-operative, stakeholder-driven  problem-solving process. Bayesian networks (BNs) are one participatory tool being increasingly used  to  facilitate this process. The upper Mgeni catchment in the province of KwaZulu-Natal, South Africa, is a key water resource area with looming water quality problems. The high number of stakeholders involved in a catchment management forum provided an environment for testing the development of a BN showing relationships between water quality problems and stakeholders in this area. Through  engagement with stakeholders at quarterly meetings during 2011, and collation and analysis of water quality time-series, qualitative and quantitative data were successfully translated into a BN for water quality improvement in the study area. The model demonstrated that certain water quality variables (for example, compliance of wastewater treatment works; increase in housing developments) were more likely to be the cause of problems than others (such as discharges from farm dams or accidental spills). The value of involving stakeholders in a co-operative process is highlighted, and it is argued that the robustness of such a model would be enhanced further if applied within a formal participatory approach using conditional probability values endorsed by all stakeholders.Keywords: catchment management, land use, probability, stakeholder engagement, water qualit

Evidence for Solar Tether-cutting Magnetic Reconnection from Coronal Field Extrapolations

Magnetic reconnection is one of the primary mechanisms for triggering solar eruptive events, but direct observation of its rapid process has been of challenge. In this Letter we present, using a nonlinear force-free field (NLFFF) extrapolation technique, a visualization of field line connectivity changes resulting from tether-cutting reconnection over about 30 minutes during the 2011 February 13 M6.6 flare in NOAA AR 11158. Evidence for the tether-cutting reconnection was first collected through multiwavelength observations and then by the analysis of the field lines traced from positions of four conspicuous flare 1700 A footpoints observed at the event onset. Right before the flare, the four footpoints are located very close to the regions of local maxima of magnetic twist index. Especially, the field lines from the inner two footpoints form two strongly twisted flux bundles (up to ~1.2 turns), which shear past each other and reach out close to the outer two footpoints, respectively. Immediately after the flare, the twist index of regions around the footpoints greatly diminish and the above field lines become low lying and less twisted (~0.6 turns), overarched by loops linking the later formed two flare ribbons. About 10% of the flux (~3x10^19 Mx) from the inner footpoints has undergone a footpoint exchange. This portion of flux originates from the edge regions of the inner footpoints that are brightened first. These rapid changes of magnetic field connectivity inferred from the NLFFF extrapolation are consistent with the tether-cutting magnetic reconnection model.Comment: 6 pages, 5 figures, accepted to the Astrophysical Journal Letter

Activation of pluripotency genes in human fibroblast cells by a novel mRNA based approach

Background: Several methods have been used to induce somatic cells to re-enter the pluripotent state. Viral transduction of reprogramming genes yields higher efficiency but involves random insertions of viral sequences into the human genome. Although induced pluripotent stem (iPS) cells can be obtained with the removable PiggyBac transposon system or an episomal system, both approaches still use DNA constructs so that resulting cell lines need to be thoroughly analyzed to confirm they are free of harmful genetic modification. Thus a method to change cell fate without using DNA will be very useful in regenerative medicine. Methodology/Principal Findings: In this study, we synthesized mRNAs encoding OCT4, SOX2, cMYC, KLF4 and SV40 large T (LT) and electroporated them into human fibroblast cells. Upon transfection, fibroblasts expressed these factors at levels comparable to, or higher than those in human embryonic stem (ES) cells. Ectopically expressed OCT4 localized to the cell nucleus within 4 hours after mRNA introduction. Transfecting fibroblasts with a mixture of mRNAs encoding all five factors significantly increased the expression of endogenous OCT4, NANOG, DNMT3 beta, REX1 and SALL4. When such transfected fibroblasts were also exposed to several small molecules (valproic acid, BIX01294 and 5'-aza-2'-deoxycytidine) and cultured in human embryonic stem cell (ES) medium they formed small aggregates positive for alkaline phosphatase activity and OCT4 protein within 30 days. Conclusion/Significance: Our results demonstrate that mRNA transfection can be a useful approach to precisely control the protein expression level and short-term expression of reprogramming factors is sufficient to activate pluripotency genes in differentiated cells

Quantum Control of Interacting Bosons in Periodic Optical Lattice

We study the avoided crossings in the dynamics of quantum controlled excitations for an interacting two-boson system in an optical lattice. Specifically, we perform numerical simulations of quantum control in this system where driving pulses connect the undriven stationary states in a manner characteristic of Stimulated Raman Adiabatic Passage (STIRAP). We demonstrate that the dynamics of such a transition is affected by chaos induced avoided crossings, resulting in a loss in coherence of the final outcome in the adiabatic limit.Comment: Accepted for publication in Physica E. Typo corrections to final versio

Does the Superior Colliculus Control Perceptual Sensitivity or Choice Bias during Attention? Evidence from a Multialternative Decision Framework

Distinct networks in the forebrain and the midbrain coordinate to control spatial attention. The critical involvement of the superior colliculus (SC)—the central structure in the midbrain network—in visuospatial attention has been shown by four seminal, published studies in monkeys (Macaca mulatta) performing multialternative tasks. However, due to the lack of a mechanistic framework for interpreting behavioral data in such tasks, the nature of the SC's contribution to attention remains unclear. Here we present and validate a novel decision framework for analyzing behavioral data in multialternative attention tasks. We apply this framework to re-examine the behavioral evidence from these published studies. Our model is a multidimensional extension to signal detection theory that distinguishes between two major classes of attentional mechanisms: those that alter the quality of sensory information or “sensitivity,” and those that alter the selective gating of sensory information or “choice bias.” Model-based simulations and model-based analyses of data from these published studies revealed a converging pattern of results that indicated that choice-bias changes, rather than sensitivity changes, were the primary outcome of SC manipulation. Our results suggest that the SC contributes to attentional performance predominantly by generating a spatial choice bias for stimuli at a selected location, and that this bias operates downstream of forebrain mechanisms that enhance sensitivity. The findings lead to a testable mechanistic framework of how the midbrain and forebrain networks interact to control spatial attention

Accelerating epistasis analysis in human genetics with consumer graphics hardware

BACKGROUND: Human geneticists are now capable of measuring more than one million DNA sequence variations from across the human genome. The new challenge is to develop computationally feasible methods capable of analyzing these data for associations with common human disease, particularly in the context of epistasis. Epistasis describes the situation where multiple genes interact in a complex non-linear manner to determine an individual's disease risk and is thought to be ubiquitous for common diseases. Multifactor Dimensionality Reduction (MDR) is an algorithm capable of detecting epistasis. An exhaustive analysis with MDR is often computationally expensive, particularly for high order interactions. This challenge has previously been met with parallel computation and expensive hardware. The option we examine here exploits commodity hardware designed for computer graphics. In modern computers Graphics Processing Units (GPUs) have more memory bandwidth and computational capability than Central Processing Units (CPUs) and are well suited to this problem. Advances in the video game industry have led to an economy of scale creating a situation where these powerful components are readily available at very low cost. Here we implement and evaluate the performance of the MDR algorithm on GPUs. Of primary interest are the time required for an epistasis analysis and the price to performance ratio of available solutions. FINDINGS: We found that using MDR on GPUs consistently increased performance per machine over both a feature rich Java software package and a C++ cluster implementation. The performance of a GPU workstation running a GPU implementation reduces computation time by a factor of 160 compared to an 8-core workstation running the Java implementation on CPUs. This GPU workstation performs similarly to 150 cores running an optimized C++ implementation on a Beowulf cluster. Furthermore this GPU system provides extremely cost effective performance while leaving the CPU available for other tasks. The GPU workstation containing three GPUs costs $2000 while obtaining similar performance on a Beowulf cluster requires 150 CPU cores which, including the added infrastructure and support cost of the cluster system, cost approximately$82,500. CONCLUSION: Graphics hardware based computing provides a cost effective means to perform genetic analysis of epistasis using MDR on large datasets without the infrastructure of a computing cluster

Josephson effects in MgB2 meta masked ion damage junctions

Ion beam damage combined with nanoscale focused ion beam direct milling was used to create manufacturable SNS type Josephson junctions in 100 nm thick MgB$_{2}$ with T$_{C}$ of 38 K. The junctions show non-hysteretic current - voltage characteristics between 36 and 4.2 K. Experimental evidence for the dc and ac Josephson effects in MgB$_{2}$ metal masked ion damage junctions are presented. This technique is particularly useful for prototyping devices due to its simplicity and flexibility of fabrication and has a great potential for high-density integration.Comment: 12 pages, 4 figures, RevTeX4, submitted to AP