Random Projections For Large-Scale Regression

Fitting linear regression models can be computationally very expensive in large-scale data analysis tasks if the sample size and the number of variables are very large. Random projections are extensively used as a dimension reduction tool in machine learning and statistics. We discuss the applications of random projections in linear regression problems, developed to decrease computational costs, and give an overview of the theoretical guarantees of the generalization error. It can be shown that the combination of random projections with least squares regression leads to similar recovery as ridge regression and principal component regression. We also discuss possible improvements when averaging over multiple random projections, an approach that lends itself easily to parallel implementation.Comment: 13 pages, 3 Figure

Principal Component Regression predicts functional responses across individuals

International audienceInter-subject variability is a major hurdle for neuroimaging group-level inference, as it creates complex image patterns that are not captured by standard analysis models and jeopardizes the sensitivity of statistical procedures. A solution to this problem is to model random subjects effects by using the redundant information conveyed by multiple imaging contrasts. In this paper, we introduce a novel analysis framework, where we estimate the amount of variance that is fit by a random effects subspace learned on other images; we show that a principal component regression estimator outperforms other regression models and that it fits a significant proportion (10% to 25%) of the between-subject variability. This proves for the first time that the accumulation of contrasts in each individual can provide the basis for more sensitive neuroimaging group analyzes

Bitter gourd, Momordica charantia L., breeding lines differ in secondary metabolite content according to market type

Bitter gourd, Momordica charantia L., is an important commercial cucurbitaceous vegetable of enormous medicinal value in Asia because of its secondary metabolite content. We report here the characterization and evaluation of open-pollinated (OP) edible South Asian and Southeast Asian types of bitter gourd breeding lines, developed at the World Vegetable Center, for horticultural traits (11 OP) and secondary metabolites (10 OP) and their comparisons with commercial OP and F1 hybrid cultivars. Marketable yields of South Asian and Southeast Asian type breeding lines were comparable to the OP ‘BARI Karella 1’ and the hybrid ‘Benteng’, respectively.The bitter gourd cultivars and breeding lines included in this study exhibited specific patterns for five secondary metabolites (saponins, carotenoids, chlorophyll a and b, and vitamin C): in general the two cultivars and South Asian type breeding lines contained higher levels of secondary metabolites, e.g. carotenoids, than the Southeast Asian bitter gourd breeding lines.Some of these bitter gourd lines will be released to Asian home and school gardeners after conducting multi-location trials across Asia to improve vegetable consumption as a main task of bitter gourd breeding

Histology of portal vascular changes associated with idiopathic non-cirrhotic portal hypertension: nomenclature and definition.

Idiopathic non-cirrhotic portal hypertension (INCPH) is a rare vascular liver disease that has attracted new interest in recent years. It is characterised by clinical signs of portal hypertension in the absence of cirrhosis or severe fibrosis and any known cause of portal hypertension. As much uncertainty exists about INCPH pathophysiology, and no definite diagnostic tests are available, liver biopsy is an essential tool for achieving a definite diagnosis. Unfortunately, the histological diagnosis of INCPH is not always straightforward, as the characteristic lesions are unevenly distributed, vary greatly in their severity, are often very subtle, and are not all necessarily present in a single case. Furthermore, specifically for the characteristic portal vessel changes observed in INCPH, the terminology and definition are ambiguous, which adds complexity to the already complex clinicopathological scenario. An international study group of liver pathologists and hepatologists pursued a consensus on nomenclature for the portal vascular lesions of INCPH. Such standardisation may assist pathologists in the recognition of such lesions, and will possibly facilitate further advancement in this field

Measuring the mass of the black widow PSR J1555-2908

Accurate measurements of the masses of neutron stars are necessary to test binary evolution models, and to constrain the neutron star equation of state. In pulsar binaries with no measurable post-Keplerian parameters, this requires an accurate estimate of the binary system's inclination and the radial velocity of the companion star by other means than pulsar timing. In this paper, we present the results of a new method for measuring this radial velocity using the binary synthesis code Icarus. This method relies on constructing a model spectrum of a tidally distorted, irradiated star as viewed for a given binary configuration. This method is applied to optical spectra of the newly discovered black widow PSR J1555-2908. By modelling the optical spectroscopy alongside optical photometry, we find that the radial velocity of the companion star is $397\pm4$ km s$^{-1}$ (errors quoted at 95\% confidence interval), as well as a binary inclination of $>75^{\rm o}$. Combined with $\gamma$-ray pulsation timing information, this gives a neutron star mass of 1.67$^{+0.15}_{-0.09}$ M$_\odot$ and a companion mass of 0.060$^{+0.005}_{-0.003}$ M$_\odot$, placing PSR J1555-2908 at the observed upper limit of what is considered a black widow system.Comment: Accepted for publication in Monthly Notices of the Royal Astronomical Society. 15 pages, 7 Figures. Underlying data available at https://zenodo.org/record/565306

Discovery of a gamma-ray black widow pulsar by GPU-accelerated Einstein@Home

We report the discovery of 1.97 ms period gamma-ray pulsations from the 75 minute orbital-period binary pulsar now named PSR J1653−0158. The associated Fermi Large Area Telescope gamma-ray source 4FGL J1653.6−0158 has long been expected to harbor a binary millisecond pulsar. Despite the pulsar-like gamma-ray spectrum and candidate optical/X-ray associations—whose periodic brightness modulations suggested an orbit—no radio pulsations had been found in many searches. The pulsar was discovered by directly searching the gamma-ray data using the GPU-accelerated Einstein@Home distributed volunteer computing system. The multidimensional parameter space was bounded by positional and orbital constraints obtained from the optical counterpart. More sensitive analyses of archival and new radio data using knowledge of the pulsar timing solution yield very stringent upper limits on radio emission. Any radio emission is thus either exceptionally weak, or eclipsed for a large fraction of the time. The pulsar has one of the three lowest inferred surface magnetic-field strengths of any known pulsar with B surf ≈ 4 × 107 G. The resulting mass function, combined with models of the companion star's optical light curve and spectra, suggests a pulsar mass gsim2 M ⊙. The companion is lightweight with mass ~0.01 M ⊙, and the orbital period is the shortest known for any rotation-powered binary pulsar. This discovery demonstrates the Fermi Large Area Telescope's potential to discover extreme pulsars that would otherwise remain undetected

Mapping geographical inequalities in childhood diarrhoeal morbidity and mortality in low-income and middle-income countries, 2000–17 : analysis for the Global Burden of Disease Study 2017

Background Across low-income and middle-income countries (LMICs), one in ten deaths in children younger than 5 years is attributable to diarrhoea. The substantial between-country variation in both diarrhoea incidence and mortality is attributable to interventions that protect children, prevent infection, and treat disease. Identifying subnational regions with the highest burden and mapping associated risk factors can aid in reducing preventable childhood diarrhoea. Methods We used Bayesian model-based geostatistics and a geolocated dataset comprising 15 072 746 children younger than 5 years from 466 surveys in 94 LMICs, in combination with findings of the Global Burden of Diseases, Injuries, and Risk Factors Study (GBD) 2017, to estimate posterior distributions of diarrhoea prevalence, incidence, and mortality from 2000 to 2017. From these data, we estimated the burden of diarrhoea at varying subnational levels (termed units) by spatially aggregating draws, and we investigated the drivers of subnational patterns by creating aggregated risk factor estimates. Findings The greatest declines in diarrhoeal mortality were seen in south and southeast Asia and South America, where 54·0% (95% uncertainty interval [UI] 38·1–65·8), 17·4% (7·7–28·4), and 59·5% (34·2–86·9) of units, respectively, recorded decreases in deaths from diarrhoea greater than 10%. Although children in much of Africa remain at high risk of death due to diarrhoea, regions with the most deaths were outside Africa, with the highest mortality units located in Pakistan. Indonesia showed the greatest within-country geographical inequality; some regions had mortality rates nearly four times the average country rate. Reductions in mortality were correlated to improvements in water, sanitation, and hygiene (WASH) or reductions in child growth failure (CGF). Similarly, most high-risk areas had poor WASH, high CGF, or low oral rehydration therapy coverage. Interpretation By co-analysing geospatial trends in diarrhoeal burden and its key risk factors, we could assess candidate drivers of subnational death reduction. Further, by doing a counterfactual analysis of the remaining disease burden using key risk factors, we identified potential intervention strategies for vulnerable populations. In view of the demands for limited resources in LMICs, accurately quantifying the burden of diarrhoea and its drivers is important for precision public health

Risk profiles and one-year outcomes of patients with newly diagnosed atrial fibrillation in India: Insights from the GARFIELD-AF Registry.

BACKGROUND: The Global Anticoagulant Registry in the FIELD-Atrial Fibrillation (GARFIELD-AF) is an ongoing prospective noninterventional registry, which is providing important information on the baseline characteristics, treatment patterns, and 1-year outcomes in patients with newly diagnosed non-valvular atrial fibrillation (NVAF). This report describes data from Indian patients recruited in this registry. METHODS AND RESULTS: A total of 52,014 patients with newly diagnosed AF were enrolled globally; of these, 1388 patients were recruited from 26 sites within India (2012-2016). In India, the mean age was 65.8 years at diagnosis of NVAF. Hypertension was the most prevalent risk factor for AF, present in 68.5% of patients from India and in 76.3% of patients globally (P < 0.001). Diabetes and coronary artery disease (CAD) were prevalent in 36.2% and 28.1% of patients as compared with global prevalence of 22.2% and 21.6%, respectively (P < 0.001 for both). Antiplatelet therapy was the most common antithrombotic treatment in India. With increasing stroke risk, however, patients were more likely to receive oral anticoagulant therapy [mainly vitamin K antagonist (VKA)], but average international normalized ratio (INR) was lower among Indian patients [median INR value 1.6 (interquartile range {IQR}: 1.3-2.3) versus 2.3 (IQR 1.8-2.8) (P < 0.001)]. Compared with other countries, patients from India had markedly higher rates of all-cause mortality [7.68 per 100 person-years (95% confidence interval 6.32-9.35) vs 4.34 (4.16-4.53), P < 0.0001], while rates of stroke/systemic embolism and major bleeding were lower after 1 year of follow-up. CONCLUSION: Compared to previously published registries from India, the GARFIELD-AF registry describes clinical profiles and outcomes in Indian patients with AF of a different etiology. The registry data show that compared to the rest of the world, Indian AF patients are younger in age and have more diabetes and CAD. Patients with a higher stroke risk are more likely to receive anticoagulation therapy with VKA but are underdosed compared with the global average in the GARFIELD-AF. CLINICAL TRIAL REGISTRATION-URL: http://www.clinicaltrials.gov. Unique identifier: NCT01090362