470 research outputs found
Distribution of the birds of the Philippines: biogeography and conservation priorities
The Philippine islands hold a concentration of species diversity and endemism of global
importance, yet few studies have analyzed biogeographic patterns or attempted to
prioritize areas for conservation within the archipelago. We analyzed distributions of 386
species on 28 Philippine islands and island groups, documenting intense concentration of
species richness, especially of endemic species, on the two largest islands, Mindanao and
Luzon. Factors identified as influencing species richness included island area, maximum
elevation, and Pleistocene patterns of connection and isolation. Reserve systems were
developed based on heuristic complementarity algorithms, and compared with the
existing Integrated Protected Areas (IPAS) system in the country, showing that IPAS is
an impressive first step towards protecting avian diversity in the country. Addition of
presently proposed reserves on Palawan and Mindoro would make IPAS a near-optimal
reserve design, at least at the level of island representation. Important challenges remain,
however, with regard to design of reserve systems within islands to represent complete
island avifaunas
Influenza Vaccine Effectiveness against Hospitalisation with Confirmed Influenza in the 2010-11 Seasons: A Test-negative Observational Study
Immunisation programs are designed to reduce serious morbidity and mortality from influenza, but most evidence supporting the effectiveness of this intervention has focused on disease in the community or in primary care settings. We aimed to examine the effectiveness of influenza vaccination against hospitalisation with confirmed influenza. We compared influenza vaccination status in patients hospitalised with PCR-confirmed influenza with patients hospitalised with influenza-negative respiratory infections in an Australian sentinel surveillance system. Vaccine effectiveness was estimated from the odds ratio of vaccination in cases and controls. We performed both simple multivariate regression and a stratified analysis based on propensity score of vaccination. Vaccination status was ascertained in 333 of 598 patients with confirmed influenza and 785 of 1384 test-negative patients. Overall estimated crude vaccine effectiveness was 57% (41%, 68%). After adjusting for age, chronic comorbidities and pregnancy status, the estimated vaccine effectiveness was 37% (95% CI: 12%, 55%). In an analysis accounting for a propensity score for vaccination, the estimated vaccine effectiveness was 48.3% (95% CI: 30.0, 61.8%). Influenza vaccination was moderately protective against hospitalisation with influenza in the 2010 and 2011 seasons
Limited T Cell Receptor Diversity of HCV-specific T Cell Responses Is Associated with CTL Escape
Escape mutations are believed to be important contributors to immune evasion by rapidly evolving viruses such as hepatitis C virus (HCV). We show that the majority of HCV-specific cytotoxic T lymphocyte (CTL) responses directed against viral epitopes that escaped immune recognition in HCV-infected chimpanzees displayed a reduced CDR3 amino acid diversity when compared with responses in which no CTL epitope variation was detected during chronic infection or with those associated with protective immunity. Decreased T cell receptor (TCR) CDR3 amino acid diversity in chronic infection could be detected long before the appearance of viral escape mutations in the plasma. In both chronic and resolved infection, identical T cell receptor clonotypes were present in liver and peripheral blood. These findings provide a deeper understanding of the evolution of CTL epitope variations in chronic viral infections and highlight the importance of the generation and maintenance of a diverse TCR repertoire directed against individual epitopes
Method to estimate ISCO and ring-down frequencies in binary systems and consequences for gravitational wave data analysis
Recent advances in the description of compact binary systems have produced
gravitational waveforms that include inspiral, merger and ring-down phases.
Comparing results from numerical simulations with those of post-Newtonian (PN),
and related, expansions has provided motivation for employing PN waveforms in
near merger epochs when searching for gravitational waves and has encouraged
the development of analytic fits to full numerical waveforms. The models and
simulations do not yet cover the full binary coalescence parameter space. For
these yet un-simulated regions, data analysts can still conduct separate
inspiral, merger and ring-down searches. Improved knowledge about the end of
the inspiral phase, the beginning of the merger, and the ring-down frequencies
could increase the efficiency of both coherent inspiral-merger-ring-down (IMR)
searches and searches over each phase separately. Insight can be gained for all
three cases through a recently presented theoretical calculation, which,
corroborated by the numerical results, provides an implicit formula for the
final spin of the merged black holes, accurate to within 10% over a large
parameter space. Knowledge of the final spin allows one to predict the end of
the inspiral phase and the quasinormal mode ring-down frequencies, and in turn
provides information about the bandwidth and duration of the merger. In this
work we will discuss a few of the implications of this calculation for data
analysis.Comment: Added references to section 3 14 pages 5 figures. Submitted to
Classical and Quantum Gravit
Status of NINJA: the Numerical INJection Analysis project
The 2008 NRDA conference introduced the Numerical INJection Analysis project (NINJA), a new collaborative effort between the numerical relativity community and the data analysis community. NINJA focuses on modeling and searching for gravitational wave signatures from the coalescence of binary system of compact objects. We review the scope of this collaboration and the components of the first NINJA project, where numerical relativity groups shared waveforms and data analysis teams applied various techniques to detect them when embedded in colored Gaussian noise
Formalizing of Category Theory in Agda
The generality and pervasiness of category theory in modern mathematics makes
it a frequent and useful target of formalization. It is however quite
challenging to formalize, for a variety of reasons. Agda currently (i.e. in
2020) does not have a standard, working formalization of category theory. We
document our work on solving this dilemma. The formalization revealed a number
of potential design choices, and we present, motivate and explain the ones we
picked. In particular, we find that alternative definitions or alternative
proofs from those found in standard textbooks can be advantageous, as well as
"fit" Agda's type theory more smoothly. Some definitions regarded as equivalent
in standard textbooks turn out to make different "universe level" assumptions,
with some being more polymorphic than others. We also pay close attention to
engineering issues so that the library integrates well with Agda's own standard
library, as well as being compatible with as many of supported type theories in
Agda as possible
Projecting ocean acidification impacts for the Gulf of Maine to 2050: new tools and expectations
© The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Siedlecki, S. A., Salisbury, J., Gledhill, D. K., Bastidas, C., Meseck, S., McGarry, K., Hunt, C. W., Alexander, M., Lavoie, D., Wang, Z. A., Scott, J., Brady, D. C., Mlsna, I., Azetsu-Scott, K., Liberti, C. M., Melrose, D. C., White, M. M., Pershing, A., Vandemark, D., Townsend, D. W., Chen, C,. Mook, W., Morrison, R. Projecting ocean acidification impacts for the Gulf of Maine to 2050: new tools and expectations. Elementa: Science of the Anthropocene, 9(1), (2021): 00062, https://doi.org/10.1525/elementa.2020.00062.Ocean acidification (OA) is increasing predictably in the global ocean as rising levels of atmospheric carbon dioxide lead to higher oceanic concentrations of inorganic carbon. The Gulf of Maine (GOM) is a seasonally varying region of confluence for many processes that further affect the carbonate system including freshwater influences and high productivity, particularly near the coast where local processes impart a strong influence. Two main regions within the GOM currently experience carbonate conditions that are suboptimal for many organisms—the nearshore and subsurface deep shelf. OA trends over the past 15 years have been masked in the GOM by recent warming and changes to the regional circulation that locally supply more Gulf Stream waters. The region is home to many commercially important shellfish that are vulnerable to OA conditions, as well as to the human populations whose dependence on shellfish species in the fishery has continued to increase over the past decade. Through a review of the sensitivity of the regional marine ecosystem inhabitants, we identified a critical threshold of 1.5 for the aragonite saturation state (Ωa). A combination of regional high-resolution simulations that include coastal processes were used to project OA conditions for the GOM into 2050. By 2050, the Ωa declines everywhere in the GOM with most pronounced impacts near the coast, in subsurface waters, and associated with freshening. Under the RCP 8.5 projected climate scenario, the entire GOM will experience conditions below the critical Ωa threshold of 1.5 for most of the year by 2050. Despite these declines, the projected warming in the GOM imparts a partial compensatory effect to Ωa by elevating saturation states considerably above what would result from acidification alone and preserving some important fisheries locations, including much of Georges Bank, above the critical threshold.This research was financially supported by the Major Special Projects of the Ministry of Science and Technology of China (2016YFC020600), the Young Scholars Science Foundation of Lanzhou Jiaotong University (2018033), and the Talent Innovation and Entrepreneurship Projects of Lanzhou (2018-RC-84)
Testing gravitational-wave searches with numerical relativity waveforms: Results from the first Numerical INJection Analysis (NINJA) project
The Numerical INJection Analysis (NINJA) project is a collaborative effort
between members of the numerical relativity and gravitational-wave data
analysis communities. The purpose of NINJA is to study the sensitivity of
existing gravitational-wave search algorithms using numerically generated
waveforms and to foster closer collaboration between the numerical relativity
and data analysis communities. We describe the results of the first NINJA
analysis which focused on gravitational waveforms from binary black hole
coalescence. Ten numerical relativity groups contributed numerical data which
were used to generate a set of gravitational-wave signals. These signals were
injected into a simulated data set, designed to mimic the response of the
Initial LIGO and Virgo gravitational-wave detectors. Nine groups analysed this
data using search and parameter-estimation pipelines. Matched filter
algorithms, un-modelled-burst searches and Bayesian parameter-estimation and
model-selection algorithms were applied to the data. We report the efficiency
of these search methods in detecting the numerical waveforms and measuring
their parameters. We describe preliminary comparisons between the different
search methods and suggest improvements for future NINJA analyses.Comment: 56 pages, 25 figures; various clarifications; accepted to CQ
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