Species Trees from Highly Incongruent Gene Trees in Rice

Several methods have recently been developed to infer multilocus phylogenies by incorporating information from topological incongruence of the individual genes. In this study, we investigate 2 such methods, Bayesian concordance analysis and Bayesian estimation of species trees. Our test data are a collection of genes from cultivated rice (genus Oryza) and the most closely related wild species, generated using a high-throughput sequencing protocol and bioinformatics pipeline. Trees inferred from independent genes display levels of topological incongruence that far exceed that seen in previous data sets analyzed with these species tree methods. We identify differences in phylogenetic results between inference methods that incorporate gene tree incongruence. Finally, we discuss the challenges of scaling these analyses for data sets with thousands of gene trees and extensive levels of missing data

Inferring the Origin Locations of Tweets with Quantitative Confidence

Social Internet content plays an increasingly critical role in many domains, including public health, disaster management, and politics. However, its utility is limited by missing geographic information; for example, fewer than 1.6% of Twitter messages (tweets) contain a geotag. We propose a scalable, content-based approach to estimate the location of tweets using a novel yet simple variant of gaussian mixture models. Further, because real-world applications depend on quantified uncertainty for such estimates, we propose novel metrics of accuracy, precision, and calibration, and we evaluate our approach accordingly. Experiments on 13 million global, comprehensively multi-lingual tweets show that our approach yields reliable, well-calibrated results competitive with previous computationally intensive methods. We also show that a relatively small number of training data are required for good estimates (roughly 30,000 tweets) and models are quite time-invariant (effective on tweets many weeks newer than the training set). Finally, we show that toponyms and languages with small geographic footprint provide the most useful location signals.Comment: 14 pages, 6 figures. Version 2: Move mathematics to appendix, 2 new references, various other presentation improvements. Version 3: Various presentation improvements, accepted at ACM CSCW 201

Investigation of 2d-wh/ts ocdma code stability in systems with soa-based device

This paper investigates for the first time how the implementation of semiconductor optical amplifier (SOA)-based devices in photonic networks can negatively impact the integrity of two-dimensional wavelength-hopping time-spreading (2D-WH/TS) optical code-division multiple access (OCDMA) codes based on multi-wavelength picosecond code carriers. It is demonstrated and confirmed by simulations that the influence of an SOA under driving currents of 50 mA to 250 mA causes a 0.08 to 0.8 nm multi-wavelength picosecond code carriers’ wavelength redshift. The results obtained are then used to calculate the degradation of OCDMA system performance in terms of the probability of error Pe and the decrease in the number of simultaneous users. It is shown that, when the SOA-induced 0.8 nm code carriers redshift becomes equal to the code carries wavelength channel spacing, the (8,53)-OCDMA system performs only as a (7,53)-OCDMA system, and the number of simultaneous users drops from 14 to 10 or 84 to 74 with the forward error correction (FEC) Pe of 10 −9, respectively. The impact of the 0.8 nm redshift is then shown on a (4,53)-OCDMA system, where it causes a drop in the number of simultaneous users from 4 to 3 or 37 to 24 with the FEC Pe of 10 −9, respectively

Maternal postpartum depression is a risk factor for infant emotional variability at 4 months

Maternal postpartum depression (PPD) is a risk for disruption of mother–infant interaction. Infants of depressed mothers have been found to display less positive, more negative, and neutral affect. Other studies have found that infants of mothers with PPD inhibit both positive and negative affect. In a sample of 28 infants of mothers with PPD and 52 infants of nonclinical mothers, we examined the role of PPD diagnosis and symptoms for infants’ emotional variability, measured as facial expressions, vocal protest, and gaze using microanalysis, during a mother–infant face-to-face interaction. PPD symptoms and diagnosis were associated with (a) infants displaying fewer high negative, but more neutral/interest facial affect events, and (b) fewer gaze off events. PPD diagnosis, but not symptoms, was associated with less infant vocal protest. Total duration of seconds of infant facial affective displays and gaze off was not related to PPD diagnosis or symptoms, suggesting that when infants of depressed mothers display high negative facial affect or gaze off, these expressions are more sustained, indicating lower infant ability to calm down and re-engage, interpreted as a disturbance in self-regulation. The findings highlight the importance of not only examining durations, but also frequencies, as the latter may inform infant emotional variability

Perceptions Of School By Two Teenage Boys With Asperger Syndrome And Their Mothers: A Qualitative Study

This qualitative study aimed to develop an understanding of the challenges faced by teenage boys with Asperger syndrome and their mothers. A case study approach was used to collect data from two 13-year-old boys who have Asperger syndrome and their mothers in Queensland, Australia. Data were collected through the use of semi¬structured interviews. The words of the boys and their mothers provide a valuable insight into the personal experiences and feelings of the par¬ticipants. An inductive approach to data analysis identified four themes: (1) developmental differences; (2) problems associated with the general characteristics of Asperger syndrome (i.e. communication and social difficulties, restricted range of interests, a need for routine); (3) stress; and (4) 'masquerading'. The first three themes relate strongly to the current literature, but the emergence of masquerading is of particular interest in developing a fuller understanding of the experiences of individuals with Asperger syndrome at school

Melter Throughput Enhancements for High-Iron HLW

This report describes work performed to develop and test new glass and feed formulations in order to increase glass melting rates in high waste loading glass formulations for HLW with high concentrations of iron. Testing was designed to identify glass and melter feed formulations that optimize waste loading and waste processing rate while meeting all processing and product quality requirements. The work included preparation and characterization of crucible melts to assess melt rate using a vertical gradient furnace system and to develop new formulations with enhanced melt rate. Testing evaluated the effects of waste loading on glass properties and the maximum waste loading that can be achieved. The results from crucible-scale testing supported subsequent DuraMelter 100 (DM100) tests designed to examine the effects of enhanced glass and feed formulations on waste processing rate and product quality. The DM100 was selected as the platform for these tests due to its extensive previous use in processing rate determination for various HLW streams and glass compositions

STU Black Holes and String Triality

We find double-extreme black holes associated with the special geometry of the Calabi-Yau moduli space with the prepotential F=STU. The area formula is STU-moduli independent and has ${[SL(2,Z)]}^3$ symmetry in space of charges. The dual version of this theory without prepotential treats the dilaton S asymmetric versus T,U-moduli. We display the dual relation between new (STU) black holes and stringy (S|TU) black holes using particular Sp(8, Z) transformation. The area formula of one theory equals that of the dual theory when expressed in terms of dual charges. We analyse the relation between (STU) black holes to string triality of black holes: (S|TU), (T|US), (U|ST) solutions. In the democratic STU-symmetric version we find that all three S and T and U duality symmetries are non-perturbative and mix electric and magnetic charges.Comment: 12 pages, 2 Postscript figures, ref.added, minor corrections, version to appear in Phys. Rev.

Jets in deep-inelastic scattering at HERA

Jet cross sections in deep-inelastic scattering over a wide region of phase space have been measured at HERA. These cross section measurements provide a thorough test of the implementation of Quantum Chromodynamics in next-to-leading order (NLO) calculations. They also provide the opportunity to test the consistency of the gluon distribution in the proton as extracted from (mainly) inclusive DIS measurements. Comparison of the cross sections with NLO enables accurate extractions of the strong coupling constant, $\alpha_s$, to be made, several of which are reported here.Comment: Talk presented at "New Trends in HERA Physics", Ringberg Workshop, June 2001. 13pages, 12figure

An electron spectrometer for proton driven plasma accelerated electrons at AWAKE: Predicted resolution of energy and emittance measurements

The Advanced Wakefield Experiment (AWAKE), to be constructed at CERN, will be the first experiment to demonstrate proton-driven plasma wakefield acceleration. The 400 GeV proton beam from the CERN SPS will excite a wakefield in a plasma cell several meters in length. To probe the plasma wakefield, electrons of 10-20 MeV will be injected into the wakefield following the head of the proton beam. Simulations indicate that electrons will be accelerated to GeV energies by the plasma wakefield. The AWAKE spectrometer is intended to measure both the peak energy and energy spread of these accelerated electrons. Under certain conditions it is also possible to use the spectrometer to measure the transverse beam emittance. The expected resolution of these measurements is investigated for various beam distributions, taking into account an optimised vacuum chamber and scintillator screen design and results of beam and optical tests

A behavioral comparison of male and female adults with high functioning autism spectrum conditions

Autism spectrum conditions (ASC) affect more males than females in the general population. However, within ASC it is unclear if there are phenotypic sex differences. Testing for similarities and differences between the sexes is important not only for clinical assessment but also has implications for theories of typical sex differences and of autism. Using cognitive and behavioral measures, we investigated similarities and differences between the sexes in age- and IQ-matched adults with ASC (high-functioning autism or Asperger syndrome). Of the 83 (45 males and 38 females) participants, 62 (33 males and 29 females) met Autism Diagnostic Interview-Revised (ADI-R) cut-off criteria for autism in childhood and were included in all subsequent analyses. The severity of childhood core autism symptoms did not differ between the sexes. Males and females also did not differ in self-reported empathy, systemizing, anxiety, depression, and obsessive-compulsive traits/symptoms or mentalizing performance. However, adult females with ASC showed more lifetime sensory symptoms (p = 0.036), fewer current socio-communication difficulties (p = 0.001), and more self-reported autistic traits (p = 0.012) than males. In addition, females with ASC who also had developmental language delay had lower current performance IQ than those without developmental language delay (p<0.001), a pattern not seen in males. The absence of typical sex differences in empathizing-systemizing profiles within the autism spectrum confirms a prediction from the extreme male brain theory. Behavioral sex differences within ASC may also reflect different developmental mechanisms between males and females with ASC. We discuss the importance of the superficially better socio-communication ability in adult females with ASC in terms of why females with ASC may more often go under-recognized, and receive their diagnosis later, than males