691 research outputs found
Artificial neural networks enable genome-scale simulations of intracellular signaling
Mammalian cells adapt their functional state in response to external signals in form of ligands that bind receptors on the cell-surface. Mechanistically, this involves signal-processing through a complex network of molecular interactions that govern transcription factor activity patterns. Computer simulations of the information flow through this network could help predict cellular responses in health and disease. Here we develop a recurrent neural network framework constrained by prior knowledge of the signaling network with ligand-concentrations as input and transcription factor-activity as output. Applied to synthetic data, it predicts unseen test-data (Pearson correlation r = 0.98) and the effects of gene knockouts (r = 0.8). We stimulate macrophages with 59 different ligands, with and without the addition of lipopolysaccharide, and collect transcriptomics data. The framework predicts this data under cross-validation (r = 0.8) and knockout simulations suggest a role for RIPK1 in modulating the lipopolysaccharide response. This work demonstrates the feasibility of genome-scale simulations of intracellular signaling. Many diseases are caused by disruptions to the network of biochemical reactions that allow cells to respond to external signals. Here Nilsson et al develop a method to simulate cellular signaling using artificial neural networks to predict cellular responses and activities of signaling molecules
A First Comparison of Kepler Planet Candidates in Single and Multiple Systems
In this letter we present an overview of the rich population of systems with
multiple candidate transiting planets found in the first four months of Kepler
data. The census of multiples includes 115 targets that show 2 candidate
planets, 45 with 3, 8 with 4, and 1 each with 5 and 6, for a total of 170
systems with 408 candidates. When compared to the 827 systems with only one
candidate, the multiples account for 17 percent of the total number of systems,
and a third of all the planet candidates. We compare the characteristics of
candidates found in multiples with those found in singles. False positives due
to eclipsing binaries are much less common for the multiples, as expected.
Singles and multiples are both dominated by planets smaller than Neptune; 69
+2/-3 percent for singles and 86 +2/-5 percent for multiples. This result, that
systems with multiple transiting planets are less likely to include a
transiting giant planet, suggests that close-in giant planets tend to disrupt
the orbital inclinations of small planets in flat systems, or maybe even to
prevent the formation of such systems in the first place.Comment: 13 pages, 13 figures, submitted to ApJ Letter
Planetary Candidates Observed by Kepler IV: Planet Sample From Q1-Q8 (22 Months)
We provide updates to the Kepler planet candidate sample based upon nearly
two years of high-precision photometry (i.e., Q1-Q8). From an initial list of
nearly 13,400 Threshold Crossing Events (TCEs), 480 new host stars are
identified from their flux time series as consistent with hosting transiting
planets. Potential transit signals are subjected to further analysis using the
pixel-level data, which allows background eclipsing binaries to be identified
through small image position shifts during transit. We also re-evaluate Kepler
Objects of Interest (KOI) 1-1609, which were identified early in the mission,
using substantially more data to test for background false positives and to
find additional multiple systems. Combining the new and previous KOI samples,
we provide updated parameters for 2,738 Kepler planet candidates distributed
across 2,017 host stars. From the combined Kepler planet candidates, 472 are
new from the Q1-Q8 data examined in this study. The new Kepler planet
candidates represent ~40% of the sample with Rp~1 Rearth and represent ~40% of
the low equilibrium temperature (Teq<300 K) sample. We review the known biases
in the current sample of Kepler planet candidates relevant to evaluating planet
population statistics with the current Kepler planet candidate sample.Comment: 12 pages, 8 figures, Accepted ApJ Supplemen
Planetary Candidates Observed by Kepler, III: Analysis of the First 16 Months of Data
New transiting planet candidates are identified in sixteen months (May 2009 -
September 2010) of data from the Kepler spacecraft. Nearly five thousand
periodic transit-like signals are vetted against astrophysical and instrumental
false positives yielding 1,091 viable new planet candidates, bringing the total
count up to over 2,300. Improved vetting metrics are employed, contributing to
higher catalog reliability. Most notable is the noise-weighted robust averaging
of multi-quarter photo-center offsets derived from difference image analysis
which identifies likely background eclipsing binaries. Twenty-two months of
photometry are used for the purpose of characterizing each of the new
candidates. Ephemerides (transit epoch, T_0, and orbital period, P) are
tabulated as well as the products of light curve modeling: reduced radius
(Rp/R*), reduced semi-major axis (d/R*), and impact parameter (b). The largest
fractional increases are seen for the smallest planet candidates (197% for
candidates smaller than 2Re compared to 52% for candidates larger than 2Re) and
those at longer orbital periods (123% for candidates outside of 50-day orbits
versus 85% for candidates inside of 50-day orbits). The gains are larger than
expected from increasing the observing window from thirteen months (Quarter 1--
Quarter 5) to sixteen months (Quarter 1 -- Quarter 6). This demonstrates the
benefit of continued development of pipeline analysis software. The fraction of
all host stars with multiple candidates has grown from 17% to 20%, and the
paucity of short-period giant planets in multiple systems is still evident. The
progression toward smaller planets at longer orbital periods with each new
catalog release suggests that Earth-size planets in the Habitable Zone are
forthcoming if, indeed, such planets are abundant.Comment: Submitted to ApJS. Machine-readable tables are available at
http://kepler.nasa.gov, http://archive.stsci.edu/kepler/results.html, and the
NASA Exoplanet Archiv
Transit Timing Observations from Kepler: III. Confirmation of 4 Multiple Planet Systems by a Fourier-Domain Study of Anti-correlated Transit Timing Variations
We present a method to confirm the planetary nature of objects in systems
with multiple transiting exoplanet candidates. This method involves a
Fourier-Domain analysis of the deviations in the transit times from a constant
period that result from dynamical interactions within the system. The
combination of observed anti-correlations in the transit times and mass
constraints from dynamical stability allow us to claim the discovery of four
planetary systems Kepler-25, Kepler-26, Kepler-27, and Kepler-28, containing
eight planets and one additional planet candidate.Comment: Accepted to MNRA
THE HOT-JUPITER KEPLER-17b: DISCOVERY, OBLIQUITY FROM STROBOSCOPIC STARSPOTS, AND ATMOSPHERIC CHARACTERIZATION
This paper reports the discovery and characterization of the transiting hot giant exoplanet Kepler-17b. The planet has an orbital period of 1.486 days, and radial velocity measurements from the Hobby–Eberly Telescope show a Doppler signal of 419.5+13.3−15.6 m s−1. From a transit-based estimate of the host star's mean density, combined with an estimate of the stellar effective temperature Teff = 5630 ± 100 from high-resolution spectra, we infer a stellar host mass of 1.06 ± 0.07 M☉ and a stellar radius of 1.02 ± 0.03 R☉. We estimate the planet mass and radius to be MP = 2.45 ± 0.11 MJ and RP = 1.31 ± 0.02 RJ. The host star is active, with dark spots that are frequently occulted by the planet. The continuous monitoring of the star reveals a stellar rotation period of 11.89 days, eight times the planet's orbital period; this period ratio produces stroboscopic effects on the occulted starspots. The temporal pattern of these spot-crossing events shows that the planet's orbit is prograde and the star's obliquity is smaller than 15°. We detected planetary occultations of Kepler-17b with both the Kepler and Spitzer Space Telescopes. We use these observations to constrain the eccentricity, e, and find that it is consistent with a circular orbit (e < 0.011). The brightness temperatures of the planet's infrared bandpasses are T3.6 μm = 1880 ± 100 K and T4.5 μm = 1770 ± 150 K. We measure the optical geometric albedo Ag in the Kepler bandpass and find Ag = 0.10 ± 0.02. The observations are best described by atmospheric models for which most of the incident energy is re-radiated away from the day side
Masses, radii, and orbits of small Kepler planets : The transition from gaseous to rocky planets
We report on the masses, sizes, and orbits of the planets orbiting 22 Kepler stars. There are 49 planet candidates around these stars, including 42 detected through transits and 7 revealed by precise Doppler measurements of the host stars. Based on an analysis of the Kepler brightness measurements, along with high-resolution imaging and spectroscopy, Doppler spectroscopy, and (for 11 stars) asteroseismology, we establish low false-positive probabilities (FPPs) for all of the transiting planets (41 of 42 have an FPP under 1%), and we constrain their sizes and masses. Most of the transiting planets are smaller than three times the size of Earth. For 16 planets, the Doppler signal was securely detected, providing a direct measurement of the planet's mass. For the other 26 planets we provide either marginal mass measurements or upper limits to their masses and densities; in many cases we can rule out a rocky composition. We identify six planets with densities above 5 g cm-3, suggesting a mostly rocky interior for them. Indeed, the only planets that are compatible with a purely rocky composition are smaller than 2 R ⊕. Larger planets evidently contain a larger fraction of low-density material (H, He, and H2O).Peer reviewedFinal Accepted Versio
TOI-431/HIP 26013: A super-Earth and a sub-Neptune transiting a bright, early K dwarf, with a third RV planet
We present the bright (Vmag = 9.12), multiplanet system TOI-431, characterized with photometry and radial velocities (RVs). We estimate the stellar rotation period to be 30.5 ± 0.7 d using archival photometry and RVs. Transiting Exoplanet Survey Satellite (TESS) objects of Interest (TOI)-431 b is a super-Earth with a period of 0.49 d, a radius of 1.28 ± 0.04 R, a mass of 3.07 ± 0.35 M, and a density of 8.0 ± 1.0 g cm-3; TOI-431 d is a sub-Neptune with a period of 12.46 d, a radius of 3.29 ± 0.09 R, a mass of 9.90+1.53-1.49 M, and a density of 1.36 ± 0.25 g cm-3. We find a third planet, TOI-431 c, in the High Accuracy Radial velocity Planet Searcher RV data, but it is not seen to transit in the TESS light curves. It has an Msin i of 2.83+0.41-0.34 M, and a period of 4.85 d. TOI-431 d likely has an extended atmosphere and is one of the most well-suited TESS discoveries for atmospheric characterization, while the super-Earth TOI-431 b may be a stripped core. These planets straddle the radius gap, presenting an interesting case-study for atmospheric evolution, and TOI-431 b is a prime TESS discovery for the study of rocky planet phase curves.Fil: Osborn, Ares. University of Warwick; Reino UnidoFil: Armstrong, David J. University of Warwick; Reino UnidoFil: Cale, Bryson. George Mason University; Estados UnidosFil: Brahm, Rafael. Universidad Adolfo Ibañez; Chile. Instituto de Astrofísica; ChileFil: Wittenmyer, Robert A. University Of Southern Queensland; AustraliaFil: Dai, Fei. Division Of Geological And Planetary Sciences; Estados UnidosFil: Crossfield, Ian J. M. University of Kansas; Estados UnidosFil: Bryant, Edward M. University of Warwick; Reino UnidoFil: Adibekyan, Vardan. Universidad de Porto; PortugalFil: Cloutier, Ryan. Harvard-Smithsonian Center for Astrophysics; Estados UnidosFil: Collins, Karen A. Harvard-Smithsonian Center for Astrophysics; Estados UnidosFil: Delgado Mena, E.. Universidad de Porto; PortugalFil: Fridlund, Malcolm. Leiden University; Países Bajos. Chalmers University of Technology; SueciaFil: Hellier, Coel. Keele University; Reino UnidoFil: Howell, Steve B. NASA Ames Research Center; Estados UnidosFil: King, George W. University of Warwick; Reino UnidoFil: Lillo Box, Jorge. Consejo Superior de Investigaciones Científicas. Centro de Astrobiología; EspañaFil: Otegi, Jon. Universidad de Ginebra; Suiza. Universitat Zurich; SuizaFil: Sousa, S.. Universidad de Porto; PortugalFil: Stassun, Keivan G. Vanderbilt University; Estados UnidosFil: Matthews, Elisabeth C. Universidad de Ginebra; Suiza. Massachusetts Institute of Technology; Estados UnidosFil: Ziegler, Carl. University of Toronto; CanadáFil: Ricker, George. Massachusetts Institute of Technology; Estados UnidosFil: Vanderspek, Roland. Massachusetts Institute of Technology; Estados UnidosFil: Latham, David W. Harvard-Smithsonian Center for Astrophysics; Estados UnidosFil: Seager, S.. Massachusetts Institute of Technology; Estados UnidosFil: Winn, Joshua N.. University of Princeton; Estados UnidosFil: Jenkins, Jon M. NASA Ames Research Center; Estados UnidosFil: Acton, Jack S. University of Leicester; Reino UnidoFil: Addison, Brett C. University Of Southern Queensland; AustraliaFil: Diaz, Rodrigo Fernando. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Ciencias Físicas. - Universidad Nacional de San Martín. Instituto de Ciencias Físicas; Argentin
Architecture and Dynamics of Kepler's Candidate Multiple Transiting Planet Systems
About one-third of the ~1200 transiting planet candidates detected in the
first four months of \ik data are members of multiple candidate systems. There
are 115 target stars with two candidate transiting planets, 45 with three, 8
with four, and one each with five and six. We characterize the dynamical
properties of these candidate multi-planet systems. The distribution of
observed period ratios shows that the vast majority of candidate pairs are
neither in nor near low-order mean motion resonances. Nonetheless, there are
small but statistically significant excesses of candidate pairs both in
resonance and spaced slightly too far apart to be in resonance, particularly
near the 2:1 resonance. We find that virtually all candidate systems are
stable, as tested by numerical integrations that assume a nominal mass-radius
relationship. Several considerations strongly suggest that the vast majority of
these multi-candidate systems are true planetary systems. Using the observed
multiplicity frequencies, we find that a single population of planetary systems
that matches the higher multiplicities underpredicts the number of
singly-transiting systems. We provide constraints on the true multiplicity and
mutual inclination distribution of the multi-candidate systems, revealing a
population of systems with multiple super-Earth-size and Neptune-size planets
with low to moderate mutual inclinations.Comment: 27 pages, 19 figures, 8 tables, emulateapj style. Accepted to ApJ.
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