Movement of American lobster (Homarus americanus) in the southwestern Gulf of St. Lawrence

A total of 42,445 American lobsters (Homarus americanus) were tagged in thirty-one sites throughout the southwestern Gulf of St. Lawrence between 1980 and 1997. Results from the recapture of 8503 tagged lobsters showed small distances traveled between the release and the recapture position for animals ranging in size from 51 to 152 mm carapace length. The average distance traveled ranged from 2 km in parts of Baie des Chaleurs and western Cape Breton to 19 km in central Northumberland Strait. Lobsters moved generally along the shore (93% of the dispersion was in areas between the shore and the 20-m bathymetric contour). As a result, lobsters traveled longer distances in sites characterized by a gradually sloping bottom where the distance between the shore and the 20-m contour line was extensive in contrast to areas characterized by rapidly changing depths and by a relatively small amount of habitat shallower than 20 m. In the majority of sites (14 of 19) there was no significant difference between males and females in the average distance they traveled. In four of the five sites females moved farther than males. In general, the average distance traveled by berried females was shorter than that traveled by males or nonberried females. No relationship was observed between the distance traveled and the size of the animal. There was no strong evidence of a relationship between the average distance traveled and the number of days at liberty. In general, lobsters in the southwestern Gulf of St. Lawrence traveled short distances and dispersion was restricted to the nearshore habitat. Further, the distance traveled was not correlated to size, sex, or years at large. These findings show that there is little interaction between American lobsters from different fishing areas at the benthic level and that American lobster movements should have minimal consequences for management of the species in the southwestern Gulf of St. Lawrence.

Solid-state qubit measurement with single electron transistors

In this paper we consider the continuous weak measurement of a solid-state qubit by single electron transistors (SET). For single-dot SET, we find that in nonlinear response regime the signal-to-noise ratio can violate the universal upper bound imposed quantum mechanically on any linear response detectors. We understand the violation by means of the cross-correlation of the detector currents. For double-dot SET, we discuss its robustness against wider range of temperatures, quantum efficiency, and the relevant open issues unresolved.

Latent factor analysis to discover pathway-associated putative segmental aneuploidies in human cancers.

Tumor microenvironmental stresses, such as hypoxia and lactic acidosis, play important roles in tumor progression. Although gene signatures reflecting the influence of these stresses are powerful approaches to link expression with phenotypes, they do not fully reflect the complexity of human cancers. Here, we describe the use of latent factor models to further dissect the stress gene signatures in a breast cancer expression dataset. The genes in these latent factors are coordinately expressed in tumors and depict distinct, interacting components of the biological processes. The genes in several latent factors are highly enriched in chromosomal locations. When these factors are analyzed in independent datasets with gene expression and array CGH data, the expression values of these factors are highly correlated with copy number alterations (CNAs) of the corresponding BAC clones in both the cell lines and tumors. Therefore, variation in the expression of these pathway-associated factors is at least partially caused by variation in gene dosage and CNAs among breast cancers. We have also found the expression of two latent factors without any chromosomal enrichment is highly associated with 12q CNA, likely an instance of "trans"-variations in which CNA leads to the variations in gene expression outside of the CNA region. In addition, we have found that factor 26 (1q CNA) is negatively correlated with HIF-1alpha protein and hypoxia pathways in breast tumors and cell lines. This agrees with, and for the first time links, known good prognosis associated with both a low hypoxia signature and the presence of CNA in this region. Taken together, these results suggest the possibility that tumor segmental aneuploidy makes significant contributions to variation in the lactic acidosis/hypoxia gene signatures in human cancers and demonstrate that latent factor analysis is a powerful means to uncover such a linkage.

Clinical effectiveness of posaconazole versus fluconazole as antifungal prophylaxis in hematology-oncology patients: a retrospective cohort study.

In preventing invasive fungal disease (IFD) in patients with acute myelogenous leukemia (AML) or myelodysplastic syndrome (MDS), clinical trials demonstrated efficacy of posaconazole over fluconazole and itraconazole. However, effectiveness of posaconazole has not been investigated in the United States in real-world setting outside the environment of controlled clinical trial. We performed a single-center, retrospective cohort study of 130 evaluable patients ≥18 years of age admitted to Duke University Hospital between 2004 and 2010 who received either posaconazole or fluconazole as prophylaxis during first induction or first reinduction chemotherapy for AML or MDS. The primary endpoint was possible, probable, or definite breakthrough IFD. Baseline characteristics were well balanced between groups, except that posaconazole recipients received reinduction chemotherapy and cytarabine more frequently. IFD occurred in 17/65 (27.0%) in the fluconazole group and in 6/65 (9.2%) in the posaconazole group (P = 0.012). Definite/probable IFDs occurred in 7 (10.8%) and 0 patients (0%), respectively (P = 0.0013). In multivariate analysis, fluconazole prophylaxis and duration of neutropenia were predictors of IFD. Mortality was similar between groups. This study demonstrates superior effectiveness of posaconazole over fluconazole as prophylaxis of IFD in AML and MDS patients. Such superiority did not translate to reductions in 100-day all-cause mortality.

Use of data dependence graphs in the design of bit-level systolic arrays

The use of bit-level systolic array circuits as building blocks in the construction of larger word-level systolic systems is investigated. It is shown that the overall structure and detailed timing of such systems may be derived quite simply using the dependence graph and cut-set procedure developed by S. Y. Kung (1988). This provides an attractive and intuitive approach to the bit-level design of many VLSI signal processing components. The technique can be applied to ripple-through and partly pipelined circuits as well as fully systolic designs. It therefore provides a means of examining the relative tradeoff between levels of pipelining, chip area, power consumption, and throughput rate within a given VLSI design.

DESIGNING VLSI SIGNAL PROCESSING CHIPS USING DATA DEPENDENCE GRAPHS.

The highly structured nature of many digital signal processing operations allows these to be directly implemented as regular VLSI circuits. This feature has been successfully exploited in the design of a number of commercial chips, some examples of which are described. While many of the architectures on which such chips are based were originally derived on heuristic basis, there is an increasing interest in the development of systematic design techniques for the direct mapping of computations onto regular VLSI arrays. The purpose of this paper is to show how the the technique proposed by Kung can be readily extended to the design of VLSI signal processing chips where the organisation of computations at the level of individual data bits is of paramount importance. The technique in question allows architectures to be derived using the projection and retiming of data dependence graphs.

Bit-level systolic arrays for IIR filtering.

A novel bit-level systolic array architecture for implementing IIR (infinite-impulse response) filter sections is presented. A first-order section achieves a latency of only two clock cycles by using a radix-2 redundant number representation, performing the recursive computation most significant digit first, and feeding back each digit of the result as soon as it is available. The design is extended to produce a building block from which second- and higher-order sections can be connected.

Systolic VLSI compiler (SVC) for high performance vector quantisation chips

An overview is given of a systolic VLSI compiler (SVC) tool currently under development for the automated design of high performance digital signal processing (DSP) chips. Attention is focused on the design of systolic vector quantization chips for use in both speech and image coding systems. The software in question consists of a cell library, silicon assemblers, simulators, test pattern generators, and a specially designed graphics shell interface which makes it expandable and user friendly. It allows very high performance digital coding systems to be rapidly designed in VLSI.

Genome-wide association analysis identifies 13 new risk loci for schizophrenia

Schizophrenia is an idiopathic mental disorder with a heritable component and a substantial public health impact. We conducted a multi-stage genome-wide association study (GWAS) for schizophrenia beginning with a Swedish national sample (5,001 cases and 6,243 controls) followed by meta-analysis with previous schizophrenia GWAS (8,832 cases and 12,067 controls) and finally by replication of SNPs in 168 genomic regions in independent samples (7,413 cases, 19,762 controls and 581 parent-offspring trios). We identified 22 loci associated at genome-wide significance; 13 of these are new, and 1 was previously implicated in bipolar disorder. Examination of candidate genes at these loci suggests the involvement of neuronal calcium signaling. We estimate that 8,300 independent, mostly common SNPs (95% credible interval of 6,300-10,200 SNPs) contribute to risk for schizophrenia and that these collectively account for at least 32% of the variance in liability. Common genetic variation has an important role in the etiology of schizophrenia, and larger studies will allow more detailed understanding of this disorder.

No major schizophrenia locus detected on chromosome 1q in a large multicenter sample

Reports of substantial evidence for genetic linkage of schizophrenia to chromosome 1q were evaluated by genotyping 16 DNA markers across 107 centimorgans of this chromosome in a multicenter sample of 779 informative schizophrenia pedigrees. No significant evidence was observed for such linkage, nor for heterogeneity in allele sharing among the eight individual samples. Separate analyses of European-origin families, recessive models of inheritance, and families with larger numbers of affected cases also failed to produce significant evidence for linkage. If schizophrenia susceptibility genes are present on chromosome 1q, their population-wide genetic effects are likely to be small.