Measuring Gas Accretion and Angular Momentum near Simulated Supermassive Black Holes

Using cosmological simulations with a dynamic range in excess of 10 million, we study the transport of gas mass and angular momentum through the circumnuclear region of a disk galaxy containing a supermassive black hole (SMBH). The simulations follow fueling over relatively quiescent phases of the galaxy's evolution (no mergers) and without feedback from active galactic nuclei (AGNs), as part of the first stage of using state-of-the-art, high-resolution cosmological simulations to model galaxy and black hole co-evolution. We present results from simulations at different redshifts (z=6, 4, and 3) and three different black hole masses (30 million, 90 million, and 300 million solar masses; at z=4), as well as a simulation including a prescription that approximates optically thick cooling in the densest regions. The interior gas mass throughout the circumnuclear disk shows transient and chaotic behavior as a function of time. The Fourier transform of the interior gas mass follows a power law with slope -1 throughout the region, indicating that, in the absence of the effects of galaxy mergers and AGN feedback, mass fluctuations are stochastic with no preferred timescale for accretion over the duration of each simulation (~ 1-2 Myr). The angular momentum of the gas disk changes direction relative to the disk on kiloparsec scales over timescales less than 1 Myr, reflecting the chaotic and transient gas dynamics of the circumnuclear region. Infalling clumps of gas, which are driven inward as a result of the dynamical state of the circumnuclear disk, may play an important role in determining the spin evolution of an SMBH, as has been suggested in stochastic accretion scenarios.Comment: 13 pages, 10 figures; accepted to ApJ; corrected minor typos and reference error

Resolving Gas Dynamics in the Circumnuclear Region of a Disk Galaxy in a Cosmological Simulation

Using a hydrodynamic adaptive mesh refinement code, we simulate the growth and evolution of a galaxy, which could potentially host a supermassive black hole, within a cosmological volume. Reaching a dynamical range in excess of 10 million, the simulation follows the evolution of the gas structure from super-galactic scales all the way down to the outer edge of the accretion disk. Here, we focus on global instabilities in the self-gravitating, cold, turbulence-supported, molecular gas disk at the center of the model galaxy, which provide a natural mechanism for angular momentum transport down to sub-pc scales. The gas density profile follows a power-law scaling as r^-8/3, consistent with an analytic description of turbulence in a quasi-stationary circumnuclear disk. We analyze the properties of the disk which contribute to the instabilities, and investigate the significance of instability for the galaxy's evolution and the growth of a supermassive black hole at the center.Comment: 16 pages (includes appendix), submitted to ApJ. Figures here are at low resolution; for higher resolution version, download http://casa.colorado.edu/~levinerd/ms.pd

Etiology of Severe Non-malaria Febrile Illness in Northern Tanzania: A Prospective Cohort Study.

The syndrome of fever is a commonly presenting complaint among persons seeking healthcare in low-resource areas, yet the public health community has not approached fever in a comprehensive manner. In many areas, malaria is over-diagnosed, and patients without malaria have poor outcomes. We prospectively studied a cohort of 870 pediatric and adult febrile admissions to two hospitals in northern Tanzania over the period of one year using conventional standard diagnostic tests to establish fever etiology. Malaria was the clinical diagnosis for 528 (60.7%), but was the actual cause of fever in only 14 (1.6%). By contrast, bacterial, mycobacterial, and fungal bloodstream infections accounted for 85 (9.8%), 14 (1.6%), and 25 (2.9%) febrile admissions, respectively. Acute bacterial zoonoses were identified among 118 (26.2%) of febrile admissions; 16 (13.6%) had brucellosis, 40 (33.9%) leptospirosis, 24 (20.3%) had Q fever, 36 (30.5%) had spotted fever group rickettsioses, and 2 (1.8%) had typhus group rickettsioses. In addition, 55 (7.9%) participants had a confirmed acute arbovirus infection, all due to chikungunya. No patient had a bacterial zoonosis or an arbovirus infection included in the admission differential diagnosis. Malaria was uncommon and over-diagnosed, whereas invasive infections were underappreciated. Bacterial zoonoses and arbovirus infections were highly prevalent yet overlooked. An integrated approach to the syndrome of fever in resource-limited areas is needed to improve patient outcomes and to rationally target disease control efforts

Cardiomyopathy Following Latrodectus Envenomation

Latrodectus envenomations are common throughout the United States and the world. While many envenomations can result in catecholamine release with resultant hypertension and tachycardia, myocarditis is very rare. We describe a case of a 22-year-old male who sustained a Latrodectus envenomation complicated by cardiomyopathy

AGN Outflows in a Cosmological Context

We combine cosmological simulations with an AGN luminosity function constrained by optical surveys in order to create a realistic AGN distribution in which to model AGN outflows. The outflows are modeled with assumptions of spherical symmetry and energy conservation. We study the importance of the kinetic luminosity of AGN outflows in determining the fractional volume of the IGM filled with outflows as a function of redshift. We find that kinetic luminosities of < 10% of the bolometric luminosities are required or the entire IGM would be filled with outflows at z=0. We also examine the effects of varying the AGN lifetime and the bias parameter, which describes how tightly correlated AGN are to high density regions. We find that longer lifetimes (tau_{AGN} ~ 1 Gyr), as well as small bias parameters increase the filling fraction.Comment: 23 pages, 10 figures, accepted for publication in Ap

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

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumorinfiltrating lymphocytes (TILs) based on H&E images from 13 TCGA tumor types. These TIL maps are derived through computational staining using a convolutional neural network trained to classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and correlation with overall survival. TIL map structural patterns were grouped using standard histopathological parameters. These patterns are enriched in particular T cell subpopulations derived from molecular measures. TIL densities and spatial structure were differentially enriched among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for the TCGA image archives with insights into the tumor-immune microenvironment

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Although theMYConcogene has been implicated incancer, a systematic assessment of alterations ofMYC, related transcription factors, and co-regulatoryproteins, forming the proximal MYC network (PMN),across human cancers is lacking. Using computa-tional approaches, we define genomic and proteo-mic features associated with MYC and the PMNacross the 33 cancers of The Cancer Genome Atlas.Pan-cancer, 28% of all samples had at least one ofthe MYC paralogs amplified. In contrast, the MYCantagonists MGA and MNT were the most frequentlymutated or deleted members, proposing a roleas tumor suppressors.MYCalterations were mutu-ally exclusive withPIK3CA,PTEN,APC,orBRAFalterations, suggesting that MYC is a distinct onco-genic driver. Expression analysis revealed MYC-associated pathways in tumor subtypes, such asimmune response and growth factor signaling; chro-matin, translation, and DNA replication/repair wereconserved pan-cancer. This analysis reveals insightsinto MYC biology and is a reference for biomarkersand therapeutics for cancers with alterations ofMYC or the PMN

Impacts of the Tropical Pacific/Indian Oceans on the Seasonal Cycle of the West African Monsoon

The current consensus is that drought has developed in the Sahel during the second half of the twentieth century as a result of remote effects of oceanic anomalies amplified by local land–atmosphere interactions. This paper focuses on the impacts of oceanic anomalies upon West African climate and specifically aims to identify those from SST anomalies in the Pacific/Indian Oceans during spring and summer seasons, when they were significant. Idealized sensitivity experiments are performed with four atmospheric general circulation models (AGCMs). The prescribed SST patterns used in the AGCMs are based on the leading mode of covariability between SST anomalies over the Pacific/Indian Oceans and summer rainfall over West Africa. The results show that such oceanic anomalies in the Pacific/Indian Ocean lead to a northward shift of an anomalous dry belt from the Gulf of Guinea to the Sahel as the season advances. In the Sahel, the magnitude of rainfall anomalies is comparable to that obtained by other authors using SST anomalies confined to the proximity of the Atlantic Ocean. The mechanism connecting the Pacific/Indian SST anomalies with West African rainfall has a strong seasonal cycle. In spring (May and June), anomalous subsidence develops over both the Maritime Continent and the equatorial Atlantic in response to the enhanced equatorial heating. Precipitation increases over continental West Africa in association with stronger zonal convergence of moisture. In addition, precipitation decreases over the Gulf of Guinea. During the monsoon peak (July and August), the SST anomalies move westward over the equatorial Pacific and the two regions where subsidence occurred earlier in the seasons merge over West Africa. The monsoon weakens and rainfall decreases over the Sahel, especially in August.Peer reviewe