Can 1D radiative equilibrium models of faculae be used for calculating contamination of transmission spectra?

The reliable characterization of planetary atmospheres with transmission spectroscopy requires realistic modeling of stellar magnetic features, since features that are attributable to an exoplanet atmosphere could instead stem from the host star's magnetic activity. Current retrieval algorithms for analysing transmission spectra rely on intensity contrasts of magnetic features from 1D radiative-convective models. However, magnetic features, especially faculae, are not fully captured by such simplified models. Here we investigate how well such 1D models can reproduce 3D facular contrasts, taking a G2V star as an example. We employ the well established radiative magnetohydrodynamic code MURaM to obtain three-dimensional simulations of the magneto-convection and photosphere harboring a local small-scale-dynamo. Simulations without additional vertical magnetic fields are taken to describe the quiet solar regions, while simulations with initially 100 G, 200 G and 300 G vertical magnetic fields are used to represent different magnetic activity levels. Subsequently, the spectra emergent from the MURaM cubes are calculated with the MPS-ATLAS radiative transfer code. We find that the wavelength dependence of facular contrast from 1D radiative-convective models cannot reproduce facular contrasts obtained from 3D modeling. This has far reaching consequences for exoplanet characterization using transmission spectroscopy, where accurate knowledge of the host star is essential for unbiased inferences of the planetary atmospheric properties.Comment: 7 pages, 2 figures, submitted to APJ

Computational Stem Cell Biology: Open Questions and Guiding Principles

Computational biology is enabling an explosive growth in our understanding of stem cells and our ability to use them for disease modeling, regenerative medicine, and drug discovery. We discuss four topics that exemplify applications of computation to stem cell biology: cell typing, lineage tracing, trajectory inference, and regulatory networks. We use these examples to articulate principles that have guided computational biology broadly and call for renewed attention to these principles as computation becomes increasingly important in stem cell biology. We also discuss important challenges for this field with the hope that it will inspire more to join this exciting area

ACCESS: A Visual to Near-infrared Spectrum of the Hot Jupiter WASP-43b with Evidence of H2O\rm H_2O, but no evidence of Na or K

We present a new ground-based visual transmission spectrum of the hot Jupiter WASP-43b, obtained as part of the ACCESS Survey. The spectrum was derived from four transits observed between 2015 and 2018, with combined wavelength coverage between 5,300 \r{A}-9,000 \r{A} and an average photometric precision of 708 ppm in 230 \r{A} bins. We perform an atmospheric retrieval of our transmission spectrum combined with literature HST/WFC3 observations to search for the presence of clouds/hazes as well as Na, K, H$\alpha$, and $\rm H_2O$ planetary absorption and stellar spot contamination over a combined spectral range of 5,318 \r{A}-16,420 \r{A}. We do not detect a statistically significant presence of Na I or K I alkali lines, or H$\alpha$ in the atmosphere of WASP-43b. We find that the observed transmission spectrum can be best explained by a combination of heterogeneities on the photosphere of the host star and a clear planetary atmosphere with $\rm H_2O$. This model yields a log-evidence of $8.26\pm0.42$ higher than a flat (featureless) spectrum. In particular, the observations marginally favor the presence of large, low-contrast spots over the four ACCESS transit epochs with an average covering fraction $f_\text{het} = 0.27^{+0.42}_{-0.16}$ and temperature contrast $\Delta T = 132\text{ K} \pm 132\text{ K}$. Within the planet's atmosphere, we recover a log $\rm H_2O$ volume mixing ratio of $-2.78^{+1.38}_{-1.47}$, which is consistent with previous $\rm H_2O$ abundance determinations for this planet.Comment: 27 pages, 18 figures, 7 tables. Accepted for publication in AJ. Updated affiliation

The effects of stand characteristics on the understory vegetation in Quercus petraea and Q. cerris dominated forests

The shelterwood system used in Hungary has many effects on the composition and structure of the herb layer. The aim of our study was to identify the main variables that affect the occurence of herbs and seedlings in Turkey oak-sessile oak (Quercus cerris and Q. petraea) stands. The study was carried out in the Bükk mountains, Hungary. 122 sampling plots were established in 50-150 year old oak forests, where we studied the species composition and structure of the understorey and overstorey. The occurence of herbs was affected by canopy closure, the heterogenity and patchiness of the stand, the slope and the east-west component of the aspect. The composition of saplings was significantly explained by the ratio of the two major oak species in the stand and the proximity of the adult plants. An important result for forest management was that sessile oaks were able to regenerate almost only where they were dominant in the overstorey

ACCESS: An optical transmission spectrum of the high-gravity, hot Jupiter HAT-P-23b

We present a new ground-based visible transmission spectrum of the high-gravity, hot Jupiter HAT-P-23b, obtained as part of the ACCESS project. We derive the spectrum from five transits observed between 2016 and 2018, with combined wavelength coverage between 5200 {\AA} - 9269 {\AA} in 200 {\AA} bins, and with a median precision of 247 ppm per bin. HAT-P-23b's relatively high surface gravity (g ~ 30 m/s^2), combined with updated stellar and planetary parameters from Gaia DR2, gives a 5-scale-height signal of 384 ppm for a hydrogen-dominated atmosphere. Bayesian models favor a clear atmosphere for the planet with the tentative presence of TiO, after simultaneously modeling stellar contamination, using spots parameter constraints from photometry. If confirmed, HAT-P-23b would be the first example of a high-gravity gas giant with a clear atmosphere observed in transmission at optical/NIR wavelengths; therefore, we recommend expanding observations to the UV and IR to confirm our results and further characterize this planet. This result demonstrates how combining transmission spectroscopy of exoplanet atmospheres with long-term photometric monitoring of the host stars can help disentangle the exoplanet and stellar activity signals.Comment: 28 pages, 18 Figures, accepted for publication in AJ. arXiv admin note: text overlap with arXiv:1911.0335

ACCESS: Confirmation of a Clear Atmosphere for WASP-96b and a Comparison of Light Curve Detrending Techniques

One of the strongest ${\rm Na~I}$ features was observed in WASP-96b. To confirm this novel detection, we provide a new 475-825nm transmission spectrum obtained with Magellan/IMACS, which indeed confirms the presence of a broad sodium absorption feature. We find the same result when reanalyzing the 400-825nm VLT/FORS2 data. We also utilize synthetic data to test the effectiveness of two common detrending techniques: (1) a Gaussian processes (GP) routine, and (2) common-mode correction followed by polynomial correction (CMC+Poly). We find that both methods poorly reproduce the absolute transit depths but maintain their true spectral shape. This emphasizes the importance of fitting for offsets when combining spectra from different sources or epochs. Additionally, we find that for our datasets both methods give consistent results, but CMC+Poly is more accurate and precise. We combine the Magellan/IMACS and VLT/FORS2 spectra with literature 800-1644nm HST/WFC3 spectra, yielding a global spectrum from 400-1644nm. We used the PLATON and Exoretrievals retrieval codes to interpret this spectrum, and find that both yield relatively deeper pressures where the atmosphere is optically thick at log-pressures between $1.3^{+1.0}_{-1.1}$ and 0.29$^{+1.86}_{-2.02}$ bars, respectively. Exoretrievals finds a solar to super-solar ${\rm Na~I}$ and ${\rm H_2O}$ log-mixing ratios of $-5.4^{+2.0}_{-1.9}$ and $-4.5^{+2.0}_{-2.0}$, respectively, while PLATON finds an overall metallicity of $log_{10}(Z/Z_{\odot}) = -0.49^{+1.0}_{-0.37}$dex. Therefore, our findings are in agreement with literature and support the inference that the terminator of WASP-96b has few aerosols obscuring prominent features in the optical to near-infrared (near-IR) spectrum.Comment: ACCEPT by AJ July 5th 202