The Implications of M Dwarf Flares on the Detection and Characterization of Exoplanets at Infrared Wavelengths

We present the results of an observational campaign which obtained high time cadence, high precision, simultaneous optical and IR photometric observations of three M dwarf flare stars for 47 hours. The campaign was designed to characterize the behavior of energetic flare events, which routinely occur on M dwarfs, at IR wavelengths to milli-magnitude precision, and quantify to what extent such events might influence current and future efforts to detect and characterize extrasolar planets surrounding these stars. We detected and characterized four highly energetic optical flares having U-band total energies of ~7.8x10^30 to ~1.3x10^32 ergs, and found no corresponding response in the J, H, or Ks bandpasses at the precision of our data. For active dM3e stars, we find that a ~1.3x10^32 erg U-band flare (delta Umax ~1.5 mag) will induce <8.3 (J), <8.5 (H), and <11.7 (Ks) milli-mags of a response. A flare of this energy or greater should occur less than once per 18 hours. For active dM4.5e stars, we find that a ~5.1x10^31 erg U-band flare (delta Umax ~1.6 mag) will induce <7.8 (J), <8.8 (H), and <5.1 (Ks) milli-mags of a response. A flare of this energy or greater should occur less than once per 10 hours. No evidence of stellar variability not associated with discrete flare events was observed at the level of ~3.9 milli-mags over 1 hour time-scales and at the level of ~5.6 milli-mags over 7.5 hour time-scales. We therefore demonstrate that most M dwarf stellar activity and flares will not influence IR detection and characterization studies of M dwarf exoplanets above the level of ~5-11 milli-mags, depending on the filter and spectral type. We speculate that the most energetic megaflares on M dwarfs, which occur at rates of once per month, are likely to be easily detected in IR observations with sensitivity of tens of milli-mags.Comment: Accepted in Astronomical Journal, 17 pages, 6 figure

Serum Metabolomics in a Helicobacter hepaticus Mouse Model of Inflammatory Bowel Disease Reveal Important Changes in the Microbiome, Serum Peptides, and Intermediary Metabolism

Inflammatory bowel disease (IBD) is a chronic relapsing inflammatory disorder of the bowel. The etiology remains unknown, but IBD is immune-driven and multiple factors including genetic, environmental, and microbiological components play a role. Recombinase-activating gene-2-deficient (Rag2–/–) mice infected with Helicobacter hepaticus (H. hepaticus) have been developed as an animal model to imitate naturally occurring inflammatory events and associated key features of chronic inflammatory responses in humans. In this study, we have combined mass spectrometry-based metabolomics and peptidomics to analyze serum samples of Rag2–/– mice infected with H. hepaticus. Metabolomics profiling revealed that H. hepaticus infection dramatically changed numerous metabolite pathways, including tryptophan metabolism, glycerophospholipids, methionine-homocysteine cycle, citrate cycle, fatty acid metabolism and purine metabolism, with the majority of metabolites being down-regulated. In particular, there were notable effects of gut microflora on the blood metabolites in infected animals. In addition, the peptidomics approach identified a number of peptides, originating from proteins, including fibrinogen, complement C4, and alpha-2-macroglobulin, with diverse biological functions with potentially important implications for the progress of IBD. In summary, the strategy of integrating a relevant animal model and sensitive mass spectrometry-based profiling may offer a new perspective to explore biomarkers and provide mechanistic insights into IBD.National Institute of Environmental Health Sciences (MIT Center for Environmental Health Sciences, NIEHS grant (Grant No. ES002109))Massachusetts Institute of Technology (MIT-Merck Fellowship

Ground- and Space-based Detection of the Thermal Emission Spectrum of the Transiting Hot Jupiter KELT-2Ab

We describe the detection of water vapor in the atmosphere of the transiting hot Jupiter KELT-2Ab by treating the star-planet system as a spectroscopic binary with high-resolution, ground-based spectroscopy. We resolve the signal of the planet's motion with deep combined flux observations of the star and the planet. In total, six epochs of Keck NIRSPEC $L$-band observations were obtained, and the full data set was subjected to a cross correlation analysis with a grid of self-consistent atmospheric models. We measure a radial projection of the Keplerian velocity, $K_P$, of 148 $\pm$ 7 km s$^{-1}$, consistent with transit measurements, and detect water vapor at 3.8$\sigma$. We combine NIRSPEC $L$-band data with $Spitzer$ IRAC secondary eclipse data to further probe the metallicity and carbon-to-oxygen ratio of KELT-2Ab's atmosphere. While the NIRSPEC analysis provides few extra constraints on the $Spitzer$ data, it does provide roughly the same constraints on metallicity and carbon-to-oxygen ratio. This bodes well for future investigations of the atmospheres of non-transiting hot Jupiters.Comment: accepted to A

Spitzer and z' Secondary Eclipse Observations of the Highly Irradiated Transiting Brown Dwarf KELT-1b

We present secondary eclipse observations of the highly irradiated transiting brown dwarf KELT-1b. These observations represent the first constraints on the atmospheric dynamics of a highly irradiated brown dwarf, and the atmospheres of irradiated giant planets at high surface gravity. Using the Spitzer Space Telescope, we measure secondary eclipse depths of 0.195+/-0.010% at 3.6um and 0.200+/-0.012% at 4.5um. We also find tentative evidence for the secondary eclipse in the z' band with a depth of 0.049+/-0.023%. These measured eclipse depths are most consistent with an atmosphere model in which there is a strong substellar hotspot, implying that heat redistribution in the atmosphere of KELT-1b is low. While models with a more mild hotspot or even with dayside heat redistribution are only marginally disfavored, models with complete heat redistribution are strongly ruled out. The eclipse depths also prefer an atmosphere with no TiO inversion layer, although a model with TiO inversion is permitted in the dayside heat redistribution case, and we consider the possibility of a day-night TiO cold trap in this object. For the first time, we compare the IRAC colors of brown dwarfs and hot Jupiters as a function of effective temperature. Importantly, our measurements reveal that KELT-1b has a [3.6]-[4.5] color of 0.07+/-0.11, identical to that of isolated brown dwarfs of similarly high temperature. In contrast, hot Jupiters generally show redder [3.6]-[4.5] colors of ~0.4, with a very large range from ~0 to ~1. Evidently, despite being more similar to hot Jupiters than to isolated brown dwarfs in terms of external forcing of the atmosphere by stellar insolation, KELT-1b has an atmosphere most like that of other brown dwarfs. This suggests that surface gravity is very important in controlling the atmospheric systems of substellar mass bodies.Comment: 14 pages, 3 tables, 11 figures. Accepted by ApJ. Updated to reflect the accepted versio

Strong Water Absorption in the Dayside Emission Spectrum of the Planet HD 189733b

Recent observations of the extrasolar planet HD 189733b did not reveal the presence of water in the emission spectrum of the planet. Yet models of such 'Hot Jupiter' planets predict an abundance of atmospheric water vapour. Validating and constraining these models is crucial for understanding the physics and chemistry of planetary atmospheres in extreme environments. Indications of the presence of water in the atmosphere of HD 189733b have recently been found in transmission spectra, where the planet's atmosphere selectively absorbs the light of the parent star, and in broadband photometry. Here we report on the detection of strong water absorption in a high signal-to-noise, mid-infrared emission spectrum of the planet itself. We find both a strong downturn in the flux ratio below 10 microns and discrete spectral features that are characteristic of strong absorption by water vapour. The differences between these and previous observations are significant and admit the possibility that predicted planetary-scale dynamical weather structures might alter the emission spectrum over time. Models that match the observed spectrum and the broadband photometry suggest that heat distribution from the dayside to the night side is weak. Reconciling this with the high night side temperature will require a better understanding of atmospheric circulation or possible additional energy sources.Comment: 11 pages, 1 figure, published in Natur

High-precision photometry by telescope defocussing. III. The transiting planetary system WASP-2

We present high-precision photometry of three transits of the extrasolar planetary system WASP-2, obtained by defocussing the telescope, and achieving point-to-point scatters of between 0.42 and 0.73 mmag. These data are modelled using the JKTEBOP code, and taking into account the light from the recently-discovered faint star close to the system. The physical properties of the WASP-2 system are derived using tabulated predictions from five different sets of stellar evolutionary models, allowing both statistical and systematic errorbars to be specified. We find the mass and radius of the planet to be M_b = 0.847 +/- 0.038 +/- 0.024 Mjup and R_b = 1.044 +/- 0.029 +/- 0.015 Rjup. It has a low equilibrium temperature of 1280 +/- 21 K, in agreement with a recent finding that it does not have an atmospheric temperature inversion. The first of our transit datasets has a scatter of only 0.42 mmag with respect to the best-fitting light curve model, which to our knowledge is a record for ground-based observations of a transiting extrasolar planet.Comment: Accepted for publication in MNRAS. 9 pages, 3 figures, 10 table

Chemical and cytokine features of innate immunity characterize serum and tissue profiles in inflammatory bowel disease

Inflammatory bowel disease (IBD) arises from inappropriate activation of the mucosal immune system resulting in a state of chronic inflammation with causal links to colon cancer. Helicobacter hepaticus-infected Rag2[superscript −/−] mice emulate many aspects of human IBD, and our recent work using this experimental model highlights the importance of neutrophils in the pathology of colitis. To define molecular mechanisms linking colitis to the identity of disease biomarkers, we performed a translational comparison of protein expression and protein damage products in tissues of mice and human IBD patients. Analysis in inflamed mouse colons identified the neutrophil- and macrophage-derived damage products 3-chlorotyrosine (Cl-Tyr) and 3-nitrotyrosine, both of which increased with disease duration. Analysis also revealed higher Cl-Tyr levels in colon relative to serum in patients with ulcerative colitis and Crohn disease. The DNA chlorination damage product, 5-chloro-2′-deoxycytidine, was quantified in diseased human colon samples and found to be present at levels similar to those in inflamed mouse colons. Multivariate analysis of these markers, together with serum proteins and cytokines, revealed a general signature of activated innate immunity in human IBD. Signatures in ulcerative colitis sera were strongly suggestive of neutrophil activity, and those in Crohn disease and mouse sera were suggestive of both macrophage and neutrophil activity. These data point to innate immunity as a major determinant of serum and tissue profiles and provide insight into IBD disease processes.National Institutes of Health (U.S.) (Grant CA26731)Massachusetts Institute of Technology. Center for Environmental Health Sciences (Grant ES002109))Massachusetts Institute of Technology (Merck Fellowship)German Academic Exchange Service (Fellowship

Atmospheric retrieval of exoplanets

Exoplanetary atmospheric retrieval refers to the inference of atmospheric properties of an exoplanet given an observed spectrum. The atmospheric properties include the chemical compositions, temperature profiles, clouds/hazes, and energy circulation. These properties, in turn, can provide key insights into the atmospheric physicochemical processes of exoplanets as well as their formation mechanisms. Major advancements in atmospheric retrieval have been made in the last decade, thanks to a combination of state-of-the-art spectroscopic observations and advanced atmospheric modeling and statistical inference methods. These developments have already resulted in key constraints on the atmospheric H2O abundances, temperature profiles, and other properties for several exoplanets. Upcoming facilities such as the JWST will further advance this area. The present chapter is a pedagogical review of this exciting frontier of exoplanetary science. The principles of atmospheric retrievals of exoplanets are discussed in detail, including parametric models and statistical inference methods, along with a review of key results in the field. Some of the main challenges in retrievals with current observations are discussed along with new directions and the future landscape

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Long noncoding RNAs (lncRNAs) are commonly dys-regulated in tumors, but only a handful are known toplay pathophysiological roles in cancer. We inferredlncRNAs that dysregulate cancer pathways, onco-genes, and tumor suppressors (cancer genes) bymodeling their effects on the activity of transcriptionfactors, RNA-binding proteins, and microRNAs in5,185 TCGA tumors and 1,019 ENCODE assays.Our predictions included hundreds of candidateonco- and tumor-suppressor lncRNAs (cancerlncRNAs) whose somatic alterations account for thedysregulation of dozens of cancer genes and path-ways in each of 14 tumor contexts. To demonstrateproof of concept, we showed that perturbations tar-geting OIP5-AS1 (an inferred tumor suppressor) andTUG1 and WT1-AS (inferred onco-lncRNAs) dysre-gulated cancer genes and altered proliferation ofbreast and gynecologic cancer cells. Our analysis in-dicates that, although most lncRNAs are dysregu-lated in a tumor-specific manner, some, includingOIP5-AS1, TUG1, NEAT1, MEG3, and TSIX, synergis-tically dysregulate cancer pathways in multiple tumorcontexts