Six questions on the construction of ontologies in biomedicine

(Report assembled for the Workshop of the AMIA Working Group on Formal Biomedical Knowledge Representation in connection with AMIA Symposium, Washington DC, 2005.) Best practices in ontology building for biomedicine have been frequently discussed in recent years. However there is a range of seemingly disparate views represented by experts in the field. These views not only reflect the different uses to which ontologies are put, but also the experiences and disciplinary background of these experts themselves. We asked six questions related to biomedical ontologies to what we believe is a representative sample of ontologists in the biomedical field and came to a number conclusions which we believe can help provide an insight into the practical problems which ontology builders face today

Measurement of the energy resolution and calibration of hybrid pixel detectors with GaAs:Cr sensor and Timepix readout chip

This paper describes an iterative method of per-pixel energy calibration of hybrid pixel detectors with GaAs:Cr sensor and Timepix readout chip. A convolution of precisely measured spectra of characteristic X-rays of different metals with the resolution and the efficiency of the pixel detector is used for the calibration. The energy resolution of the detector is also measured during the calibration. The use of per-pixel calibration allows to achieve a good energy resolution of the Timepix detector with GaAs:Cr sensor: 8% and 13% at 60 keV and 20 keV, respectively

Validation of Advanced Computer Codes for VVER Technology: LB-LOCA Transient in PSB-VVER Facility

The OECD/NEA PSB-VVER project provided unique and useful experimental data for code validation from PSB-VVER test facility. This facility represents the scaled-down layout of the Russian-designed pressurized water reactor, namely, VVER-1000. Five experiments were executed, dealing with loss of coolant scenarios (small, intermediate, and large break loss of coolant accidents), a primary-to-secondary leak, and a parametric study (natural circulation test) aimed at characterizing the VVER system at reduced mass inventory conditions. The comparative analysis, presented in the paper, regards the large break loss of coolant accident experiment. Four participants from three different institutions were involved in the benchmark and applied their own models and set up for four different thermal-hydraulic system codes. The benchmark demonstrated the performances of such codes in predicting phenomena relevant for safety on the basis of fixed criteria

The first evidence for multiple pulsation axes: a new roAp star in the Kepler field, KIC 10195926

We have discovered a new rapidly oscillating Ap star among the Kepler Mission target stars, KIC 10195926. This star shows two pulsation modes with periods that are amongst the longest known for roAp stars at 17.1 min and 18.1 min, indicating that the star is near the terminal age main sequence. The principal pulsation mode is an oblique dipole mode that shows a rotationally split frequency septuplet that provides information on the geometry of the mode. The secondary mode also appears to be a dipole mode with a rotationally split triplet, but we are able to show within the improved oblique pulsator model that these two modes cannot have the same axis of pulsation. This is the first time for any pulsating star that evidence has been found for separate pulsation axes for different modes. The two modes are separated in frequency by 55 microHz, which we model as the large separation. The star is an alpha^2 CVn spotted magnetic variable that shows a complex rotational light variation with a period of Prot = 5.68459 d. For the first time for any spotted magnetic star of the upper main sequence, we find clear evidence of light variation with a period of twice the rotation period; i.e. a subharmonic frequency of $\nu_{\rm rot}/2$. We propose that this and other subharmonics are the first observed manifestation of torsional modes in an roAp star. From high resolution spectra we determine Teff = 7400 K, log g = 3.6 and v sin i = 21 km/s. We have found a magnetic pulsation model with fundamental parameters close to these values that reproduces the rotational variations of the two obliquely pulsating modes with different pulsation axes. The star shows overabundances of the rare earth elements, but these are not as extreme as most other roAp stars. The spectrum is variable with rotation, indicating surface abundance patches.Comment: 17 pages; 16 figures; MNRA

On certain other sets of integers

We show that if A is a subset of {1,...,N} containing no non-trivial three-term arithmetic progressions then |A|=O(N/ log^{3/4-o(1)} N).Comment: 29 pp. Corrected typos. Added definitions for some non-standard notation and remarks on lower bound

Psychological features of hockey players with different stress resistance

Objective: to study emotional and characterological features of hockey players with different stress resistance. Materials and methods: 120 hockey players of the Junior Hockey League (JHL) aged from 16 to 21 years were involved in the study. Interviewing, evaluation of medical records, test of differential self-assessment of the functional state (SAN) and method of personality research using the questionnaire FPI (modified form B) were conducted. Results: according to the results of the study, it was found that hockey players with high stress resistance had significantly lower rates on the scales of neuroticism, depression, irritability, emotional lability, as well as significantly higher rates on the scales of sociability, openness, well-being and mood (p<0.05). On the contrary, hockey players with low stress resistance had opposite features. Also, hockey players with high stress resistance had a higher sports experience, as well as better health. Conclusions: stress-resistance of players has significantly high connection with neurotism and irritability, as well as significant moderate negative association with age and sports experience. It is established that with increasing of neuroticism and irritability, as well as reducing of the age and sports experience stress resistance of hockey players decreases. Taking into account the results of the study, in order to maintain health, prolong professional longevity and maintain the proper level of performance of hockey players, it is important to use an integrated approach that provides a whole group of activities: rationalization of work and rest, improvement of working conditions, optimization of microclimate in the team

Pulsation in the atmosphere of the roAp star HD 24712. I. Spectroscopic observations and radial velocity measurements

We have investigated the structure of the pulsating atmosphere of one of the best studied rapidly oscillating Ap stars, HD 24712. For this purpose we analyzed spectra collected during 2001-2004. An extensive data set was obtained in 2004 simultaneously with the photometry of the Canadian MOST mini-satellite. This allows us to connect directly atmospheric dynamics observed as radial velocity variations with light variations seen in photometry. We directly derived for the first time and for different chemical elements, respectively ions, phase shifts between photometric and radial velocity pulsation maxima indicating, as we suggest, different line formation depths in the atmosphere. This allowed us to estimate for the first time the propagation velocity of a pulsation wave in the outer stellar atmosphere of a roAp star to be slightly lower than the sound speed. We confirm large pulsation amplitudes (150-400 m/s) for REE lines and the Halpha core, while spectral lines of the other elements (Mg, Si, Ca, and Fe-peak elements) have nearly constant velocities. We did not find different pulsation amplitudes and phases for the lines of rare-earth elements before and after the Balmer jump, which supports the hypothesis of REE concentration in the upper atmosphere above the hydrogen line-forming layers. We also discuss radial velocity amplitudes and phases measured for individual spectral lines as tools for a 3D tomography of the atmosphere of HD 24712.Comment: accepted by A&

A search for kilogauss magnetic fields in white dwarfs and hot subdwarf stars

We present new results of a survey for weak magnetic fields among DA white dwarfs with inclusion of some brighter hot subdwarf stars. We have detected variable circular polarization in the Halpha line of the hot subdwarf star Feige 34 (SP: sdO). From these data, we estimate that the longitudinal magnetic field of this star varies from -1.1 +/- 3.2 kG to +9.6 +/- 2.6 kG, with a mean of about +5 kG and a period longer than 2 h. In this study, we also confirm the magnetic nature of white dwarf WD1105-048 and present upper limits of kilogauss longitudinal magnetic fields of 5 brightest DA white dwarfs. Our data support recent finding that 25% of white dwarfs have kilogauss magnetic fields. This frequency also confirms results of early estimates obtained using the magnetic field function of white dwarfs.Comment: accepted for publication in the Astrphysical Journa