Prefix-Projection Global Constraint for Sequential Pattern Mining

Sequential pattern mining under constraints is a challenging data mining task. Many efficient ad hoc methods have been developed for mining sequential patterns, but they are all suffering from a lack of genericity. Recent works have investigated Constraint Programming (CP) methods, but they are not still effective because of their encoding. In this paper, we propose a global constraint based on the projected databases principle which remedies to this drawback. Experiments show that our approach clearly outperforms CP approaches and competes well with ad hoc methods on large datasets

Assimilation of sea ice thickness derived from CryoSat-2 along-track freeboard measurements into the Met Office's Forecast Ocean Assimilation Model (FOAM)

The feasibility of assimilating sea ice thickness (SIT) observations derived from CryoSat-2 along-track measurements of sea ice freeboard is successfully demonstrated using a 3D-Var assimilation scheme, NEMOVAR, within the Met Office's global, coupled ocean–sea-ice model, Forecast Ocean Assimilation Model (FOAM). The CryoSat-2 Arctic freeboard measurements are produced by the Centre for Polar Observation and Modelling (CPOM) and are converted to SIT within FOAM using modelled snow depth. This is the first time along-track observations of SIT have been used in this way, with other centres assimilating gridded and temporally averaged observations. The assimilation leads to improvements in the SIT analysis and forecast fields generated by FOAM, particularly in the Canadian Arctic. Arctic-wide observation-minus-background assimilation statistics for 2015–2017 show improvements of 0.75 m mean difference and 0.41 m root-mean-square difference (RMSD) in the freeze-up period and 0.46 m mean difference and 0.33 m RMSD in the ice break-up period. Validation of the SIT analysis against independent springtime in situ SIT observations from NASA Operation IceBridge (OIB) shows improvement in the SIT analysis of 0.61 m mean difference (0.42 m RMSD) compared to a control without SIT assimilation. Similar improvements are seen in the FOAM 5 d SIT forecast. Validation of the SIT assimilation with independent Beaufort Gyre Exploration Project (BGEP) sea ice draft observations does not show an improvement, since the assimilated CryoSat-2 observations compare similarly to the model without assimilation in this region. Comparison with airborne electromagnetic induction (Air-EM) combined measurements of SIT and snow depth shows poorer results for the assimilation compared to the control, despite covering similar locations to the OIB and BGEP datasets. This may be evidence of sampling uncertainty in the matchups with the Air-EM validation dataset, owing to the limited number of observations available over the time period of interest. This may also be evidence of noise in the SIT analysis or uncertainties in the modelled snow depth, in the assimilated SIT observations, or in the data used for validation. The SIT analysis could be improved by upgrading the observation uncertainties used in the assimilation. Despite the lack of CryoSat-2 SIT observations available for assimilation over the summer due to the detrimental effect of melt ponds on retrievals, it is shown that the model is able to retain improvements to the SIT field throughout the summer months due to prior, wintertime SIT assimilation. This also results in regional improvements to the July modelled sea ice concentration (SIC) of 5 % RMSD in the European sector, due to slower melt of the thicker sea ice

Breakdown of Fermi-liquid theory in a cuprate superconductor

The behaviour of electrons in solids is remarkably well described by Landau's Fermi-liquid theory, which says that even though electrons in a metal interact they can still be treated as well-defined fermions, called ``quasiparticles''. At low temperature, the ability of quasiparticles to transport heat is strictly given by their ability to transport charge, via a universal relation known as the Wiedemann-Franz law, which no material in nature has been known to violate. High-temperature superconductors have long been thought to fall outside the realm of Fermi-liquid theory, as suggested by several anomalous properties, but this has yet to be shown conclusively. Here we report on the first experimental test of the Wiedemann-Franz law in a cuprate superconductor, (Pr,Ce)$_2$CuO$_4$. Our study reveals a clear departure from the universal law and provides compelling evidence for the breakdown of Fermi-liquid theory in high-temperature superconductors.Comment: 7 pages, 3 figure

Assimilation of sea ice thickness derived from CryoSat-2 along-track freeboard measurements into the Met Office's Forecast Ocean Assimilation Model (FOAM)

The feasibility of assimilating sea ice thickness (SIT) observations derived from CryoSat-2 along-track measurements of sea ice freeboard is successfully demonstrated using a 3D-Var assimilation scheme, NEMOVAR, within the Met Office's global, coupled ocean–sea-ice model, Forecast Ocean Assimilation Model (FOAM). The CryoSat-2 Arctic freeboard measurements are produced by the Centre for Polar Observation and Modelling (CPOM) and are converted to SIT within FOAM using modelled snow depth. This is the first time along-track observations of SIT have been used in this way, with other centres assimilating gridded and temporally averaged observations. The assimilation leads to improvements in the SIT analysis and forecast fields generated by FOAM, particularly in the Canadian Arctic. Arctic-wide observation-minus-background assimilation statistics for 2015–2017 show improvements of 0.75 m mean difference and 0.41 m root-mean-square difference (RMSD) in the freeze-up period and 0.46 m mean difference and 0.33 m RMSD in the ice break-up period. Validation of the SIT analysis against independent springtime in situ SIT observations from NASA Operation IceBridge (OIB) shows improvement in the SIT analysis of 0.61 m mean difference (0.42 m RMSD) compared to a control without SIT assimilation. Similar improvements are seen in the FOAM 5 d SIT forecast. Validation of the SIT assimilation with independent Beaufort Gyre Exploration Project (BGEP) sea ice draft observations does not show an improvement, since the assimilated CryoSat-2 observations compare similarly to the model without assimilation in this region. Comparison with airborne electromagnetic induction (Air-EM) combined measurements of SIT and snow depth shows poorer results for the assimilation compared to the control, despite covering similar locations to the OIB and BGEP datasets. This may be evidence of sampling uncertainty in the matchups with the Air-EM validation dataset, owing to the limited number of observations available over the time period of interest. This may also be evidence of noise in the SIT analysis or uncertainties in the modelled snow depth, in the assimilated SIT observations, or in the data used for validation. The SIT analysis could be improved by upgrading the observation uncertainties used in the assimilation. Despite the lack of CryoSat-2 SIT observations available for assimilation over the summer due to the detrimental effect of melt ponds on retrievals, it is shown that the model is able to retain improvements to the SIT field throughout the summer months due to prior, wintertime SIT assimilation. This also results in regional improvements to the July modelled sea ice concentration (SIC) of 5 % RMSD in the European sector, due to slower melt of the thicker sea ice

Prognostic Breast Cancer Signature Identified from 3D Culture Model Accurately Predicts Clinical Outcome across Independent Datasets

One of the major tenets in breast cancer research is that early detection is vital for patient survival by increasing treatment options. To that end, we have previously used a novel unsupervised approach to identify a set of genes whose expression predicts prognosis of breast cancer patients. The predictive genes were selected in a well-defined three dimensional (3D) cell culture model of non-malignant human mammary epithelial cell morphogenesis as down-regulated during breast epithelial cell acinar formation and cell cycle arrest. Here we examine the ability of this gene signature (3D-signature) to predict prognosis in three independent breast cancer microarray datasets having 295, 286, and 118 samples, respectively. Our results show that the 3D-signature accurately predicts prognosis in three unrelated patient datasets. At 10 years, the probability of positive outcome was 52, 51, and 47 percent in the group with a poor-prognosis signature and 91, 75, and 71 percent in the group with a good-prognosis signature for the three datasets, respectively (Kaplan-Meier survival analysis, p<0.05). Hazard ratios for poor outcome were 5.5 (95% CI 3.0 to 12.2, p<0.0001), 2.4 (95% CI 1.6 to 3.6, p<0.0001) and 1.9 (95% CI 1.1 to 3.2, p = 0.016) and remained significant for the two larger datasets when corrected for estrogen receptor (ER) status. Hence the 3D-signature accurately predicts breast cancer outcome in both ER-positive and ER-negative tumors, though individual genes differed in their prognostic ability in the two subtypes. Genes that were prognostic in ER+ patients are AURKA, CEP55, RRM2, EPHA2, FGFBP1, and VRK1, while genes prognostic in ER patients include ACTB, FOXM1 and SERPINE2 (Kaplan-Meier p<0.05). Multivariable Cox regression analysis in the largest dataset showed that the 3D-signature was a strong independent factor in predicting breast cancer outcome. The 3D-signature accurately predicts breast cancer outcome across multiple datasets and holds prognostic value for both ER-positive and ER-negative breast cancer. The signature was selected using a novel biological approach and hence holds promise to represent the key biological processes of breast cancer

by M Sprenger Rapid communications HIV and AIDS in the European Union, 2009 4

D Tubin-Delic, on behalf of the outbreak control team Surveillance and outbreak reports Control of a multi-hospital outbreak of KPC-producing Klebsiella pneumonia

The personalized advantage index: Translating research on prediction into individualized treatment recommendations. A demonstration

Background: Advances in personalized medicine require the identification of variables that predict differential response to treatments as well as the development and refinement of methods to transform predictive information into actionable recommendations. Objective: To illustrate and test a new method for integrating predictive information to aid in treatment selection, using data from a randomized treatment comparison. Method: Data from a trial of antidepressant medications (N = 104) versus cognitive behavioral therapy (N = 50) for Major Depressive Disorder were used to produce predictions of post-treatment scores on the Hamilton Rating Scale for Depression (HRSD) in each of the two treatments for each of the 154 patients. The patient's own data were not used in the models that yielded these predictions. Five pre-randomization variables that predicted differential response (marital status, employment status, life events, comorbid personality disorder, and prior medication trials) were included in regression models, permitting the calculation of each patient's Personalized Advantage Index (PAI), in HRSD units. Results: For 60% of the sample a clinically meaningful advantage (PAI≥3) was predicted for one of the treatments, relative to the other. When these patients were divided into those randomly assigned to their "Optimal" treatment versus those assigned to their "Non-optimal" treatment, outcomes in the former group were superior (d = 0.58, 95% CI .17-1.01). Conclusions: This approach to treatment selection, implemented in the context of two equally effective treatments, yielded effects that, if obtained prospectively, would rival those routinely observed in comparisons of active versus control treatments. © 2014 DeRubeis et al

One-year follow-up of patients of the ongoing Dutch Q fever outbreak: clinical, serological and echocardiographic findings

Contains fulltext : 89915.pdf (publisher's version ) (Open Access)PURPOSE: In 2007, a large goat-farming-associated Q fever outbreak occurred in the Netherlands. Data on the clinical outcome of Dutch Q fever patients are lacking. The current advocated follow-up strategy includes serological follow-up to detect evolution to chronic disease and cardiac screening at baseline to identify and prophylactically treat Q fever patients in case of valvulopathy. However, serological follow-up using commercially available tests is complicated by the lack of validated cut-off values. Furthermore, cardiac screening in the setting of a large outbreak has not been implemented previously. Therefore, we report here the clinical outcome, serological follow-up and cardiac screening data of the Q fever patients of the current ongoing outbreak. METHODS: The implementation of a protocol including clinical and serological follow-up at baseline and 3, 6 and 12 months after acute Q fever and screening echocardiography at baseline. RESULTS: Eighty-five patients with acute Q fever were identified (male 62%, female 38%). An aspecific, flu-like illness was the most common clinical presentation. Persistent symptoms after acute Q fever were reported by 59% of patients at 6 months and 30% at 12 months follow-up. We observed a typical serological response to Coxiella burnetii infection in both anti-phase I and anti-phase II IgG antibodies, with an increase in antibody titres up to 3 months and a subsequent decrease in the following 9 months. Screening echocardiography was available for 66 (78%) out of 85 Q fever patients. Cardiac valvulopathy was present in 39 (59%) patients. None of the 85 patients developed chronic Q fever. CONCLUSIONS: Clinical, serological and echocardiographic data of the current ongoing Dutch Q fever outbreak cohort are presented. Screening echocardiography is no longer part of the standard work-up of Q fever patients in the Netherlands.1 december 201