934 research outputs found
Cardiac cell modelling: Observations from the heart of the cardiac physiome project
In this manuscript we review the state of cardiac cell modelling in the context of international initiatives such as the IUPS Physiome and Virtual Physiological Human Projects, which aim to integrate computational models across scales and physics. In particular we focus on the relationship between experimental data and model parameterisation across a range of model types and cellular physiological systems. Finally, in the context of parameter identification and model reuse within the Cardiac Physiome, we suggest some future priority areas for this field
Diffusive and ballistic current spin-polarization in magnetron-sputtered L1o-ordered epitaxial FePt
We report on the structural, magnetic, and electron transport properties of a
L1o-ordered epitaxial iron-platinum alloy layer fabricated by
magnetron-sputtering on a MgO(001) substrate. The film studied displayed a long
range chemical order parameter of S~0.90, and hence has a very strong
perpendicular magnetic anisotropy. In the diffusive electron transport regime,
for temperatures ranging from 2 K to 258 K, we found hysteresis in the
magnetoresistance mainly due to electron scattering from magnetic domain walls.
At 2 K, we observed an overall domain wall magnetoresistance of about 0.5 %. By
evaluating the spin current asymmetry alpha = sigma_up / sigma_down, we were
able to estimate the diffusive spin current polarization. At all temperatures
ranging from 2 K to 258 K, we found a diffusive spin current polarization of >
80%. To study the ballistic transport regime, we have performed point-contact
Andreev-reflection measurements at 4.2 K. We obtained a value for the ballistic
current spin polarization of ~42% (which compares very well with that of a
polycrystalline thin film of elemental Fe). We attribute the discrepancy to a
difference in the characteristic scattering times for oppositely spin-polarized
electrons, such scattering times influencing the diffusive but not the
ballistic current spin polarization.Comment: 22 pages, 13 figure
Orbital free ab initio molecular dynamics study of liquid Al near melting
ProducciĂłn CientĂficaThe orbital free ab initio molecular dynamics method is applied to study the static and dynamic
structure of liquid Al near the triple point. The method uses a new kinetic energy functional, along
with a local pseudopotential constructed within the same kinetic energy functional. The results
obtained for the dynamic structure factor are compared with recent experimental data
Molecular analysis of two novel missense mutations in the GDF5 proregion that reduce protein activity and are associated with brachydactyly type C
Growth and differentiation factor 5 (GDF5) plays a central role in bone and cartilage development by regulating the proliferation and differentiation of chondrogenic tissue. GDF5 is synthesized as a preproprotein. The biological function of the proregion comprising 354 residues is undefined. We identified two families with a heterozygosity for the novel missense mutations p.T201P or p.L263P located in the proregion of GDF5. The patients presented with dominant brachydactyly type C characterized by the shortening of skeletal elements in the distal extremities. Both mutations gave rise to decreased biological activity in in vitro analyses. The variants reduced the GDF5-induced activation of SMAD signaling by the GDF5 receptors BMPR1A and BMPR1B. Ectopic expression in micromass cultures yielded relatively low protein levels of the variants and showed diminished chondrogenic activity as compared to wild-type GDF5. Interestingly, stimulation of micromass cells with recombinant human proGDF5(T201P) and proGDF5(L263P) revealed their reduced chondrogenic potential compared to the wild-type protein. Limited proteolysis of the mutant recombinant proproteins resulted in a fragment pattern profoundly different from wild-type proGDF5. Modeling of a part of the GDF5 proregion into the known three-dimensional structure of TGFbeta1 latency-associated peptide revealed that the homologous positions of both mutations are conserved regions that may be important for the folding of the mature protein or the assembly of dimeric protein complexes. We hypothesize that the missense mutations p.T201P and p.L263P interfere with the protein structure and thereby reduce the amount of fully processed, biologically active GDF5, finally causing the clinical loss of function phenotype
Characterizing Exoplanets in the Visible and Infrared: A Spectrometer Concept for the EChO Space Mission
Transit-spectroscopy of exoplanets is one of the key observational techniques
to characterize the extrasolar planet and its atmosphere. The observational
challenges of these measurements require dedicated instrumentation and only the
space environment allows an undisturbed access to earth-like atmospheric
features such as water or carbon-dioxide. Therefore, several exoplanet-specific
space missions are currently being studied. One of them is EChO, the Exoplanet
Characterization Observatory, which is part of ESA's Cosmic Vision 2015-2025
program, and which is one of four candidates for the M3 launch slot in 2024. In
this paper we present the results of our assessment study of the EChO
spectrometer, the only science instrument onboard this spacecraft. The
instrument is a multi-channel all-reflective dispersive spectrometer, covering
the wavelength range from 400 nm to 16 microns simultaneously with a moderately
low spectral resolution. We illustrate how the key technical challenge of the
EChO mission - the high photometric stability - influences the choice of
spectrometer concept and drives fundamentally the instrument design. First
performance evaluations underline the fitness of the elaborated design solution
for the needs of the EChO mission.Comment: 20 pages, 8 figures, accepted for publication in the Journal of
Astronomical Instrumentatio
RNA secondary structure prediction from multi-aligned sequences
It has been well accepted that the RNA secondary structures of most
functional non-coding RNAs (ncRNAs) are closely related to their functions and
are conserved during evolution. Hence, prediction of conserved secondary
structures from evolutionarily related sequences is one important task in RNA
bioinformatics; the methods are useful not only to further functional analyses
of ncRNAs but also to improve the accuracy of secondary structure predictions
and to find novel functional RNAs from the genome. In this review, I focus on
common secondary structure prediction from a given aligned RNA sequence, in
which one secondary structure whose length is equal to that of the input
alignment is predicted. I systematically review and classify existing tools and
algorithms for the problem, by utilizing the information employed in the tools
and by adopting a unified viewpoint based on maximum expected gain (MEG)
estimators. I believe that this classification will allow a deeper
understanding of each tool and provide users with useful information for
selecting tools for common secondary structure predictions.Comment: A preprint of an invited review manuscript that will be published in
a chapter of the book `Methods in Molecular Biology'. Note that this version
of the manuscript may differ from the published versio
Multi-band high resolution spectroscopy rules out the hot Jupiter BD+20 1790b - First data from the GIARPS Commissioning
Context. Stellar activity is currently challenging the detection of young
planets via the radial velocity (RV) technique. Aims. We attempt to
definitively discriminate the nature of the RV variations for the young active
K5 star BD+20 1790, for which visible (VIS) RV measurements show divergent
results on the existence of a substellar companion. Methods. We compare VIS
data with high precision RVs in the near infrared (NIR) range by using the
GIANO - B and IGRINS spectrographs. In addition, we present for the first time
simultaneous VIS-NIR observations obtained with GIARPS (GIANO - B and HARPS -
N) at Telescopio Nazionale Galileo (TNG). Orbital RVs are achromatic, so the RV
amplitude does not change at different wavelengths, while stellar activity
induces wavelength-dependent RV variations, which are significantly reduced in
the NIR range with respect to the VIS. Results. The NIR radial velocity
measurements from GIANO - B and IGRINS show an average amplitude of about one
quarter with respect to previously published VIS data, as expected when the RV
jitter is due to stellar activity. Coeval multi-band photometry surprisingly
shows larger amplitudes in the NIR range, explainable with a mixture of cool
and hot spots in the same active region. Conclusions. In this work, the claimed
massive planet around BD+20 1790 is ruled out by our data. We exploited the
crucial role of multi- wavelength spectroscopy when observing young active
stars: thanks to facilities like GIARPS that provide simultaneous observations,
this method can reach its maximum potential.Comment: 12 pages, 7 figure
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