Gaseous Structures in Barred Galaxies: Effects of the Bar Strength

Using hydrodynamic simulations, we investigate the physical properties of gaseous substructures in barred galaxies and their relationships with the bar strength. The gaseous medium is assumed to be isothermal and unmagnetized. The bar potential is modeled as a Ferrers prolate with index n. To explore situations with differing bar strength, we vary the bar mass fbar relative to the spheroidal component as well as its aspect ratio. We derive expressions as functions of fbar and the aspect ratio for the bar strength Qb and the radius r(Qb) where the maximum bar torque occurs. When applied to observations, these expressions suggest that bars in real galaxies are most likely to have fbar=0.25-0.5 and n<1. Dust lanes approximately follow one of x1-orbits and tend to be more straight under a stronger and more elongated bar, but are insensitive to the presence of self-gravity. A nuclear ring of a conventional x2 type forms only when the bar is not so massive or elongated. The radius of an x2-type ring is generally smaller than the inner Lindblad resonance, decreases systematically with increasing Qb, and slightly larger when self-gravity is included. This evidences that the ring position is not determined by the resonance but by the amount of angular momentum loss at dust-lane shocks. Nuclear spirals exist only when the ring is of the x2-type and sufficiently large in size. Unlike the other features, nuclear spirals are transient in that they start out as being tightly-wound and weak, and then due to the nonlinear effect unwind and become stronger until turning into shocks, with an unwinding rate higher for larger Qb. The mass inflow rate to the galaxy center is found to be less than 0.01 Msun/yr for models with Qb<0.2, while becoming larger than 0.1 Msun/yr when Qb>0.2 and self-gravity is included.Comment: 24 pages, 17 figures, 5 tables; Accepted for publication in the ApJ; Version with full-resolution figures available at http://mirzam.snu.ac.kr/~wkim/Bar/barHDn.pd

Two-Dimensional Magnetohydrodynamic Simulations of Barred Galaxies

Barred galaxies are known to possess magnetic fields that may affect the properties of bar substructures such as dust lanes and nuclear rings. We use two-dimensional high-resolution magnetohydrodynamic (MHD) simulations to investigate the effects of magnetic fields on the formation and evolution of such substructures as well as on the mass inflow rates to the galaxy center. The gaseous medium is assumed to be infinitesimally-thin, isothermal, non-self-gravitating, and threaded by initially uniform, azimuthal magnetic fields. We find that there exists an outermost x1-orbit relative to which gaseous responses to an imposed stellar bar potential are completely different between inside and outside. Inside this orbit, gas is shocked into dust lanes and infalls to form a nuclear ring. Magnetic fields are compressed in dust lanes, reducing their peak density. Magnetic stress removes further angular momentum of the gas at the shocks, temporarily causing the dust lanes to bend into an 'L' shape and eventually leading to a smaller and more centrally distributed ring than in unmagnetized models. The mass inflow rates in magnetized models correspondingly become larger, by more than two orders of magnitude when the initial fields have an equipartition value with thermal energy, than in the unmagnetized counterparts. Outside the outermost x1-orbit, on the other hand, an MHD dynamo due to the combined action of the bar potential and background shear operates near the corotation and bar-end regions, efficiently amplifying magnetic fields. The amplified fields shape into trailing magnetic arms with strong fields and low density. The base of the magnetic arms has a thin layer in which magnetic fields with opposite polarity reconnect via a tearing-mode instability. This produces numerous magnetic islands with large density which propagate along the arms to turn the outer disk into a highly chaotic state.Comment: 22 pages, 19 figures, 3 tables; Accepted for publication in the ApJ; Version with full-resolution figures available at http://mirzam.snu.ac.kr/~wkim/Bar/mhdbar.pd

Engineering the shape and structure of materials by fractal cut

In this paper we discuss the transformation of a sheet of material into a wide range of desired shapes and patterns by introducing a set of simple cuts in a multilevel hierarchy with different motifs. Each choice of hierarchical cut motif and cut level allows the material to expand into a unique structure with a unique set of properties. We can reverse-engineer the desired expanded geometries to find the requisite cut pattern to produce it without changing the physical properties of the initial material. The concept was experimentally realized and applied to create an electrode that expands to >800% the original area with only very minor stretching of the underlying material. The generality of our approach greatly expands the design space for materials so that they can be tuned for diverse applications.Korea Institute of Science and Technology (Internal Research Funding Grant 2Z04050)Korea Institute of Science and Technology (Internal Research Funding Grant 2V03320)National Research Council of Science and Technology (Grant NST-Yunghap-13-1)National Science Foundation (U.S.). Division of Materials Research (Grant 1120901)National Science Foundation (U.S.). Chemical, Bioengineering, Environmental, and Transport Systems (Grant 1240696

Central Regions of Barred Galaxies: Two-Dimensional Non-self-gravitating Hydrodynamic Simulations

The inner regions of barred galaxies contain substructures such as off-axis shocks, nuclear rings, and nuclear spirals. These substructure may affect star formation, and control the activity of a central black hole (BH) by determining the mass inflow rate. We investigate the formation and properties of such substructures using high-resolution, grid-based hydrodynamic simulations. The gaseous medium is assumed to be infinitesimally-thin, isothermal, and non-self-gravitating. The stars and dark matter are represented by a static gravitational potential with four components: a stellar disk, the bulge, a central BH, and the bar. To investigate various galactic environments, we vary the gas sound speed c_s as well as the mass of the central BH M_BH. Once the flow has reached a quasi-steady state, off-axis shocks tend to move closer to the bar major axis as c_s increases. Nuclear rings shrink in size with increasing c_s, but are independent of M_BH, suggesting that ring position is not determined by the Lindblad resonances. Rings in low-c_s models are narrow since they are occupied largely by gas on x2-orbits and well decoupled from nuclear spirals, while they become broad because of large thermal perturbations in high-c_s models. Nuclear spirals persist only when either c_s is small or M_BH is large; they would otherwise be destroyed completely by the ring material on eccentric orbits. The shape and strength of nuclear spirals depend sensitively on c_s and M_BH such that they are leading if both c_s and M_BH are small, weak trailing if c_s is small and M_BH is large, and strong trailing if both c_s and M_BH are large. While the mass inflow rate toward the nucleus is quite small in low-c_s models because of the presence of a narrow nuclear ring, it becomes larger than 0.01 Msun/yr when c_s is large, providing a potential explanation of nuclear activity in Seyfert galaxies.Comment: Accepted for publication in the ApJ; Version with full-resolution figures available at http://mirzam.snu.ac.kr/~wkim/Bar/bar.pd

Comparative proteomics identifies Schlafen 5 (SLFN5) as a herpes simplex virus restriction factor that suppresses viral transcription

Intrinsic antiviral host factors confer cellular defence by limiting virus replication and are often counteracted by viral countermeasures. We reasoned that host factors that inhibit viral gene expression could be identified by determining proteins bound to viral DNA (vDNA) in the absence of key viral antagonists. Herpes simplex virus 1 (HSV-1) expresses E3 ubiquitin-protein ligase ICP0 (ICP0), which functions as an E3 ubiquitin ligase required to promote infection. Cellular substrates of ICP0 have been discovered as host barriers to infection but the mechanisms for inhibition of viral gene expression are not fully understood. To identify restriction factors antagonized by ICP0, we compared proteomes associated with vDNA during HSV-1 infection with wild-type virus and a mutant lacking functional ICP0 (ΔICP0). We identified the cellular protein Schlafen family member 5 (SLFN5) as an ICP0 target that binds vDNA during HSV-1 ΔICP0 infection. We demonstrated that ICP0 mediates ubiquitination of SLFN5, which leads to its proteasomal degradation. In the absence of ICP0, SLFN5 binds vDNA to repress HSV-1 transcription by limiting accessibility of RNA polymerase II to viral promoters. These results highlight how comparative proteomics of proteins associated with viral genomes can identify host restriction factors and reveal that viral countermeasures can overcome SLFN antiviral activity

Assessing the carcinogenic potential of low-dose exposures to chemical mixtures in the environment: the challenge ahead.

Lifestyle factors are responsible for a considerable portion of cancer incidence worldwide, but credible estimates from the World Health Organization and the International Agency for Research on Cancer (IARC) suggest that the fraction of cancers attributable to toxic environmental exposures is between 7% and 19%. To explore the hypothesis that low-dose exposures to mixtures of chemicals in the environment may be combining to contribute to environmental carcinogenesis, we reviewed 11 hallmark phenotypes of cancer, multiple priority target sites for disruption in each area and prototypical chemical disruptors for all targets, this included dose-response characterizations, evidence of low-dose effects and cross-hallmark effects for all targets and chemicals. In total, 85 examples of chemicals were reviewed for actions on key pathways/mechanisms related to carcinogenesis. Only 15% (13/85) were found to have evidence of a dose-response threshold, whereas 59% (50/85) exerted low-dose effects. No dose-response information was found for the remaining 26% (22/85). Our analysis suggests that the cumulative effects of individual (non-carcinogenic) chemicals acting on different pathways, and a variety of related systems, organs, tissues and cells could plausibly conspire to produce carcinogenic synergies. Additional basic research on carcinogenesis and research focused on low-dose effects of chemical mixtures needs to be rigorously pursued before the merits of this hypothesis can be further advanced. However, the structure of the World Health Organization International Programme on Chemical Safety 'Mode of Action' framework should be revisited as it has inherent weaknesses that are not fully aligned with our current understanding of cancer biology

Smoking and Genetic Risk Variation Across Populations of E uropean, A sian, and A frican A merican Ancestry—A Meta‐Analysis of Chromosome 15q25

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/91126/1/gepi21627.pd

PAIP 2019: Liver cancer segmentation challenge

Pathology Artificial Intelligence Platform (PAIP) is a free research platform in support of pathological artificial intelligence (AI). The main goal of the platform is to construct a high-quality pathology learning data set that will allow greater accessibility. The PAIP Liver Cancer Segmentation Challenge, organized in conjunction with the Medical Image Computing and Computer Assisted Intervention Society (MICCAI 2019), is the first image analysis challenge to apply PAIP datasets. The goal of the challenge was to evaluate new and existing algorithms for automated detection of liver cancer in whole-slide images (WSIs). Additionally, the PAIP of this year attempted to address potential future problems of AI applicability in clinical settings. In the challenge, participants were asked to use analytical data and statistical metrics to evaluate the performance of automated algorithms in two different tasks. The participants were given the two different tasks: Task 1 involved investigating Liver Cancer Segmentation and Task 2 involved investigating Viable Tumor Burden Estimation. There was a strong correlation between high performance of teams on both tasks, in which teams that performed well on Task 1 also performed well on Task 2. After evaluation, we summarized the top 11 team&apos;s algorithms. We then gave pathological implications on the easily predicted images for cancer segmentation and the challenging images for viable tumor burden estimation. Out of the 231 participants of the PAIP challenge datasets, a total of 64 were submitted from 28 team participants. The submitted algorithms predicted the automatic segmentation on the liver cancer with WSIs to an accuracy of a score estimation of 0.78. The PAIP challenge was created in an effort to combat the lack of research that has been done to address Liver cancer using digital pathology. It remains unclear of how the applicability of AI algorithms created during the challenge can affect clinical diagnoses. However, the results of this dataset and evaluation metric provided has the potential to aid the development and benchmarking of cancer diagnosis and segmentation. (C) 2020 The Authors. Published by Elsevier B.V

Genome-Wide Association Study of Lung Adenocarcinoma in East Asia and Comparison With a European Population

Lung adenocarcinoma is the most common type of lung cancer. Known risk variants explain only a small fraction of lung adenocarcinoma heritability. Here, we conducted a two-stage genome-wide association study of lung adenocarcinoma of East Asian ancestry (21,658 cases and 150,676 controls; 54.5% never-smokers) and identified 12 novel susceptibility variants, bringing the total number to 28 at 25 independent loci. Transcriptome-wide association analyses together with colocalization studies using a Taiwanese lung expression quantitative trait loci dataset (n = 115) identified novel candidate genes, including FADS1 at 11q12 and ELF5 at 11p13. In a multi-ancestry meta-analysis of East Asian and European studies, four loci were identified at 2p11, 4q32, 16q23, and 18q12. At the same time, most of our findings in East Asian populations showed no evidence of association in European populations. In our studies drawn from East Asian populations, a polygenic risk score based on the 25 loci had a stronger association in never-smokers vs. individuals with a history of smoking (Pinteraction = 0.0058). These findings provide new insights into the etiology of lung adenocarcinoma in individuals from East Asian populations, which could be important in developing translational applications

High-resolution CT phenotypes in pulmonary sarcoidosis: a multinational Delphi consensus study

One view of sarcoidosis is that the term covers many different diseases. However, no classification framework exists for the future exploration of pathogenetic pathways, genetic or trigger predilections, patterns of lung function impairment, or treatment separations, or for the development of diagnostic algorithms or relevant outcome measures. We aimed to establish agreement on high-resolution CT (HRCT) phenotypic separations in sarcoidosis to anchor future CT research through a multinational two-round Delphi consensus process. Delphi participants included members of the Fleischner Society and the World Association of Sarcoidosis and other Granulomatous Disorders, as well as members' nominees. 146 individuals (98 chest physicians, 48 thoracic radiologists) from 28 countries took part, 144 of whom completed both Delphi rounds. After rating of 35 Delphi statements on a five-point Likert scale, consensus was achieved for 22 (63%) statements. There was 97% agreement on the existence of distinct HRCT phenotypes, with seven HRCT phenotypes that were categorised by participants as non-fibrotic or likely to be fibrotic. The international consensus reached in this Delphi exercise justifies the formulation of a CT classification as a basis for the possible definition of separate diseases. Further refinement of phenotypes with rapidly achievable CT studies is now needed to underpin the development of a formal classification of sarcoidosis