Oregon, My Oregon

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Mumford dendrograms and discrete p-adic symmetries

In this article, we present an effective encoding of dendrograms by embedding them into the Bruhat-Tits trees associated to $p$-adic number fields. As an application, we show how strings over a finite alphabet can be encoded in cyclotomic extensions of $\mathbb{Q}_p$ and discuss $p$-adic DNA encoding. The application leads to fast $p$-adic agglomerative hierarchic algorithms similar to the ones recently used e.g. by A. Khrennikov and others. From the viewpoint of $p$-adic geometry, to encode a dendrogram $X$ in a $p$-adic field $K$ means to fix a set $S$ of $K$-rational punctures on the $p$-adic projective line $\mathbb{P}^1$. To $\mathbb{P}^1\setminus S$ is associated in a natural way a subtree inside the Bruhat-Tits tree which recovers $X$, a method first used by F. Kato in 1999 in the classification of discrete subgroups of $\textrm{PGL}_2(K)$. Next, we show how the $p$-adic moduli space $\mathfrak{M}_{0,n}$ of $\mathbb{P}^1$ with $n$ punctures can be applied to the study of time series of dendrograms and those symmetries arising from hyperbolic actions on $\mathbb{P}^1$. In this way, we can associate to certain classes of dynamical systems a Mumford curve, i.e. a $p$-adic algebraic curve with totally degenerate reduction modulo $p$. Finally, we indicate some of our results in the study of general discrete actions on $\mathbb{P}^1$, and their relation to $p$-adic Hurwitz spaces.Comment: 14 pages, 6 figure

Sparse p-Adic Data Coding for Computationally Efficient and Effective Big Data Analytics

We develop the theory and practical implementation of p-adic sparse coding of data. Rather than the standard, sparsifying criterion that uses the $L_0$ pseudo-norm, we use the p-adic norm.We require that the hierarchy or tree be node-ranked, as is standard practice in agglomerative and other hierarchical clustering, but not necessarily with decision trees. In order to structure the data, all computational processing operations are direct reading of the data, or are bounded by a constant number of direct readings of the data, implying linear computational time. Through p-adic sparse data coding, efficient storage results, and for bounded p-adic norm stored data, search and retrieval are constant time operations. Examples show the effectiveness of this new approach to content-driven encoding and displaying of data

APPLaUD: access for patients and participants to individual level uninterpreted genomic data.

BACKGROUND: There is a growing support for the stance that patients and research participants should have better and easier access to their raw (uninterpreted) genomic sequence data in both clinical and research contexts. MAIN BODY: We review legal frameworks and literature on the benefits, risks, and practical barriers of providing individuals access to their data. We also survey genomic sequencing initiatives that provide or plan to provide individual access. Many patients and research participants expect to be able to access their health and genomic data. Individuals have a legal right to access their genomic data in some countries and contexts. Moreover, increasing numbers of participatory research projects, direct-to-consumer genetic testing companies, and now major national sequencing initiatives grant individuals access to their genomic sequence data upon request. CONCLUSION: Drawing on current practice and regulatory analysis, we outline legal, ethical, and practical guidance for genomic sequencing initiatives seeking to offer interested patients and participants access to their raw genomic data

Computational modelling of emboli travel trajectories in cerebral arteries: Influence of microembolic particle size and density

This article has been made available through the Brunel Open Access Publishing Fund.Ischaemic stroke is responsible for up to 80 % of stroke cases. Prevention of the reoccurrence of ischaemic attack or stroke for patients who survived the first symptoms is the major treatment target. Accurate diagnosis of the emboli source for a specific infarction lesion is very important for a better treatment for the patient. However, due to the complex blood flow patterns in the cerebral arterial network, little is known so far of the embolic particle flow trajectory and its behaviour in such a complex flow field. The present study aims to study the trajectories of embolic particles released from carotid arteries and basilar artery in a cerebral arterial network and the influence of particle size, mass and release location to the particle distributions, by computational modelling. The cerebral arterial network model, which includes major arteries in the circle of Willis and several generations of branches from them, was generated from MRI images. Particles with diameters of 200, 500 and 800 μ m and densities of 800, 1,030 and 1,300 kg/m 3 were released in the vessel's central and near-wall regions. A fully coupled scheme of particle and blood flow in a computational fluid dynamics software ANASYS CFX 13 was used in the simulations. The results show that heavy particles (density large than blood or a diameter larger than 500 μ m) normally have small travel speeds in arteries; larger or lighter embolic particles are more likely to travel to large branches in cerebral arteries. In certain cases, all large particles go to the middle cerebral arteries; large particles with higher travel speeds in large arteries are likely to travel at more complex and tortuous trajectories; emboli raised from the basilar artery will only exit the model from branches of basilar artery and posterior cerebral arteries. A modified Circle of Willis configuration can have significant influence on particle distributions. The local branch patterns of internal carotid artery to middle cerebral artery and anterior communicating artery can have large impact on such distributions. © 2014 The Author(s)

The application of a Trous wave filtering and Monte Carlo analysis on SECIS 2001 solar eclipse observations

8000 images of the Solar corona were captured during the June 2001 total Solar eclipse. New software for the alignment of the images and an automated technique for detecting intensity oscillations using multi scale wavelet analysis were developed. Large areas of the images covered by the Moon and the upper corona were scanned for oscillations and the statistical properties of the atmospheric effects were determined. The a Trous wavelet transform was used for noise reduction and Monte Carlo analysis as a significance test of the detections. The effectiveness of those techniques is discussed in detail.Comment: 17 pages, 8 figures, accepted by Solar Physics Journal for publication in Topical Issue: "Frontiers in Solar Image Processing

Algorithms for Hierarchical Clustering: An Overview, II

We survey agglomerative hierarchical clustering algorithms and discuss efficient implementations that are available in R and other software environments. We look at hierarchical self-organizing maps, and mixture models. We review grid-based clustering, focusing on hierarchical density-based approaches. Finally we describe a recently developed very efficient (linear time) hierarchical clustering algorithm, which can also be viewed as a hierarchical grid-based algorithm. This review adds to the earlier version, Murtagh and Contreras (2012)

The Importance of Speed and Power in Elite Youth Soccer Depends on Maturation Status

Maturation status is a confounding factor when identifying talent in elite youth soccer players (ESP). By comparing performance of ESP and control participants (CON) matched for maturation status, the aims of our study were to establish the importance of acceleration, sprint, horizontal-forward jump and vertical jump capabilities for determining elite soccer playing status at different stages of maturation. ESP (n=213; age, 14.0±3.5 yrs) and CON (n=113; age, 15.0±4.4 yrs) were grouped using years from/to predicted peak height velocity (PHV) to determine maturation status (ESP: pre-PHV, n=100; mid-PHV, n=25; post-PHV, n=88; CON: pre-PHV, n=44; mid-PHV, n=15; post-PHV, n=54). Participants performed three reps of: 10 m and 20 m sprint, bilateral vertical countermovement jump (BV CMJ) and bilateral horizontal-forward countermovement jump (BH CMJ). ESP demonstrated faster 10 m (P<0.001) and 20 m sprint (P<0.001) performance than CON at all stages of maturation. Mid-PHV and post-PHV ESP achieved greater BV CMJ height (P<0.001) and BH CMJ distance (ESP vs. CON; mid-PHV: 164.32±12.75 vs. 136.53±21.96 cm; post-PHV: 197.57±17.05 vs. 168.06±18.50 cm; P<0.001) compared to CON but there was no difference in BV or BH CMJ between pre-PHV ESP and CON. While 10 and 20 m and sprint performance may be determinants of elite soccer playing status at all stages of maturation, horizontal-forward and vertical jumping capabilities only discriminate ESP from CON participants at mid- and post-PHV. Our data therefore suggests that soccer talent identification protocols should include sprint, but not jump assessments in pre-PHV players

Towards person-centered quality care for children with life-limiting and life-threatening illness: self-reported symptoms, concerns and priority outcomes from a multi-country qualitative study

Abstract Background: Paediatric life-limiting and life-threatening conditionslife-limiting conditions place significant strain on children, families and health systems. Given high service use among this population, it is essential that care addresses their main symptoms and concerns. Aim: This study aimed to identify the symptoms, concerns, and other outcomes that matter to children with life-limiting conditions and their families in sub-Saharan Africa.Setting and participants: Cross-sectional qualitative study in Kenya, Namibia, South Africa and Uganda. Children/caregivers of children aged 0-17 years with life-limiting conditions were purposively sampled by age, sex, and diagnosis. Children aged 7 and above self-reported; caregiver proxies reported for children below 7 and those aged 7 and above unable to self-report.Results: 120 interviews were conducted with children with life-limiting conditions (n=61 age range 7-17 years), and where self-report was not possible caregivers (n=59) of children (age range 0-17). Conditions included advanced HIV (22%), cancer (19%), heart disease (16%) endocrine, blood and immune disorders (13%), neurological conditions (12%), sickle cell anaemia (10%) and renal disease (8%). Outcomes identified included: physical concerns – pain and symptom distress; psycho-social concerns – family and social relationships, ability to engage with age-appropriate activities (e.g., play, school attendance); existential concerns – worry about death, and loss of ambitions,health care quality– child- and adolescent-friendly services. Priority psycho-social concerns and health service factors varied by age.Conclusion: This study bridges an important knowledge gap regarding symptoms, concerns and outcomes that matter to children living with life-limiting conditions and their families and informs service development and evaluation

Validation of the Aura Microwave Limb Sounder HNOmeasurements

We assess the quality of the version 2.2 (v2.2) HNO3 measurements from the Microwave Limb Sounder (MLS) on the Earth Observing System Aura satellite. The MLS HNO3 product has been greatly improved over that in the previous version (v1.5), with smoother profiles, much more realistic behavior at the lowest retrieval levels, and correction of a high bias caused by an error in one of the spectroscopy files used in v1.5 processing. The v2.2 HNO3 data are scientifically useful over the range 215 to 3.2 hPa, with single-profile precision of ∼0.7 ppbv throughout. Vertical resolution is 3–4 km in the upper troposphere and lower stratosphere, degrading to ∼5 km in the middle and upper stratosphere. The impact of various sources of systematic uncertainty has been quantified through a comprehensive set of retrieval simulations. In aggregate, systematic uncertainties are estimated to induce in the v2.2 HNO3 measurements biases that vary with altitude between ±0.5 and ±2 ppbv and multiplicative errors of ±5–15% throughout the stratosphere, rising to ∼±30% at 215 hPa. Consistent with this uncertainty analysis, comparisons with correlative data sets show that relative to HNO3 measurements from ground-based, balloon-borne, and satellite instruments operating in both the infrared and microwave regions of the spectrum, MLS v2.2 HNO3 mixing ratios are uniformly low by 10–30% throughout most of the stratosphere. Comparisons with in situ measurements made from the DC-8 and WB-57 aircraft in the upper troposphere and lowermost stratosphere indicate that the MLS HNO3 values are low in this region as well, but are useful for scientific studies (with appropriate averaging)