BGrep and BDiff: UNIX Tools for High-Level Languages

The rise in high-level languages for system administrators requires us to rethink traditional UNIX tools designed for these older data formats. We propose new block-oriented tools, bgrep and bdiff, operating on syntactic blocks of code rather than the line, the traditional information container of UNIX. Transcending the line number allows us to introduce longitudinal diff, a mode of bdiff that lets us track changes across arbitrary blocks of code. We present a detailed implementation roadmap and evaluation framework for the full version of this paper. In addition we demonstrate how the design of our tools already addresses several real-wold problems faced by network administrators to maintain security policy

Sonographic Findings of Pectoralis Major Tears With Surgical, Clinical, and Magnetic Resonance Imaging Correlation in 6 Patients

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/135465/1/jum200524125.pd

Buried hurricane legacies: increased nutrient limitation and decreased root biomass in coastal wetlands

Plant identity and cover in coastal wetlands is changing in worldwide, and many subtropical salt marshes dominated by low-stature herbaceous species are becoming woody mangroves. Yet, how changes affect coastal soil biogeochemical processes and belowground biomass before and after storms is uncertain. We experimentally manipulated the percent mangrove cover (Avicennia germinans) in 3 × 3 m cells embedded in 10 plots (24 × 42 m) comprising a gradient of marsh (e.g., Spartina alterniflora, Batis maritima) and mangrove cover in Texas, USA. Hurricane Harvey made direct landfall over our site on 25 August 2017, providing a unique opportunity to test how plant composition mitigates hurricane effects on surface sediment accretion, soil chemistry (carbon, C; nitrogen, N; phosphorus, P; and sulfur, S), and root biomass. Data were collected before (2013 and 2016), one-month after (2017), and one-year after (2018) Hurricane Harvey crossed the area, allowing us to measure stocks before and after the hurricane. The accretion depth was higher in fringe compared with interior cells of plots, more variable in cells dominated by marsh than mangrove, and declined with increasing plot-scale mangrove cover. The concentrations of P and δ34S in storm-driven accreted surface sediments, and the concentrations of N, P, S, and δ34S in underlying soils (0–30 cm), decreased post-hurricane, whereas the C concentrations in both compartments were unchanged. Root biomass in both marsh and mangrove cells was reduced by 80% in 2017 compared with previous dates and remained reduced in 2018. Post-hurricane loss of root biomass in plots correlated with enhanced nutrient limitation. Total sulfide accumulation as indicated by δ34S, increased nutrient limitation, and decreased root biomass of both marshes and mangroves after hurricanes may affect ecosystem function and increase vulnerability in coastal wetlands to subsequent disturbances. Understanding how changes in plant composition in coastal ecosystems affects responses to hurricane disturbances is needed to assess coastal vulnerability

The Disk Substructures at High Angular Resolution Project (DSHARP). II. Characteristics of Annular Substructures

The Disk Substructures at High Angular Resolution Project (DSHARP) used ALMA to map the 1.25 mm continuum of protoplanetary disks at a spatial resolution of ~5 au. We present a systematic analysis of annular substructures in the 18 single-disk systems targeted in this survey. No dominant architecture emerges from this sample; instead, remarkably diverse morphologies are observed. Annular substructures can occur at virtually any radius where millimeter continuum emission is detected and range in widths from a few astronomical units to tens of astronomical units. Intensity ratios between gaps and adjacent rings range from near-unity to just a few percent. In a minority of cases, annular substructures coexist with other types of substructures, including spiral arms (3/18) and crescent-like azimuthal asymmetries (2/18). No clear trend is observed between the positions of the substructures and stellar host properties. In particular, the absence of an obvious association with stellar host luminosity (and hence the disk thermal structure) suggests that substructures do not occur preferentially near major molecular snowlines. Annular substructures like those observed in DSHARP have long been hypothesized to be due to planet–disk interactions. A few disks exhibit characteristics particularly suggestive of this scenario, including substructures in possible mean-motion resonance and double gap features reminiscent of hydrodynamical simulations of multiple gaps opened by a planet in a low-viscosity disk

Real-Time Dynamic Imaging of Virus Distribution In Vivo

The distribution of viruses and gene therapy vectors is difficult to assess in a living organism. For instance, trafficking in murine models can usually only be assessed after sacrificing the animal for tissue sectioning or extraction. These assays are laborious requiring whole animal sectioning to ascertain tissue localization. They also obviate the ability to perform longitudinal or kinetic studies in one animal. To track viruses after systemic infection, we have labeled adenoviruses with a near-infrared (NIR) fluorophore and imaged these after intravenous injection in mice. Imaging was able to track and quantitate virus particles entering the jugular vein simultaneous with injection, appearing in the heart within 500 milliseconds, distributing in the bloodstream and throughout the animal within 7 seconds, and that the bulk of virus distribution was essentially complete within 3 minutes. These data provide the first in vivo real-time tracking of the rapid initial events of systemic virus infection

Insights from a Convocation: Integrating Discovery-Based Research into the Undergraduate Curriculum

The National Academies of Sciences, Engineering, and Medicine organized a convocation in 2015 to explore and elucidate opportunities, barriers, and realities of course-based undergraduate research experiences, known as CUREs, as a potentially integral component of undergraduate science, technology, engineering, and mathematics education. This paper summarizes the convocation and resulting report

FAK activity sustains intrinsic and acquired ovarian cancer resistance to platinum chemotherapy.

Gene copy number alterations, tumor cell stemness, and the development of platinum chemotherapy resistance contribute to high-grade serous ovarian cancer (HGSOC) recurrence. Stem phenotypes involving Wnt-β-catenin, aldehyde dehydrogenase activities, intrinsic platinum resistance, and tumorsphere formation are here associated with spontaneous gains in Kras, Myc and FAK (KMF) genes in a new aggressive murine model of ovarian cancer. Adhesion-independent FAK signaling sustained KMF and human tumorsphere proliferation as well as resistance to cisplatin cytotoxicity. Platinum-resistant tumorspheres can acquire a dependence on FAK for growth. Accordingly, increased FAK tyrosine phosphorylation was observed within HGSOC patient tumors surviving neo-adjuvant chemotherapy. Combining a FAK inhibitor with platinum overcame chemoresistance and triggered cell apoptosis. FAK transcriptomic analyses across knockout and reconstituted cells identified 135 targets, elevated in HGSOC, that were regulated by FAK activity and β-catenin including Myc, pluripotency and DNA repair genes. These studies reveal an oncogenic FAK signaling role supporting chemoresistance

University of Kentucky Measurements of Wind, Temperature, Pressure and Humidity in Support of LAPSE-RATE Using Multisite Fixed-Wing and Rotorcraft Unmanned Aerial Systems

In July 2018, unmanned aerial systems (UASs) were deployed to measure the properties of the lower atmosphere within the San Luis Valley, an elevated valley in Colorado, USA, as part of the Lower Atmospheric Profiling Studies at Elevation – a Remotely-piloted Aircraft Team Experiment (LAPSE-RATE). Measurement objectives included detailing boundary layer transition, canyon cold-air drainage and convection initiation within the valley. Details of the contribution to LAPSE-RATE made by the University of Kentucky are provided here, which include measurements by seven different fixed-wing and rotorcraft UASs totaling over 178 flights with validated data. The data from these coordinated UAS flights consist of thermodynamic and kinematic variables (air temperature, humidity, pressure, wind speed and direction) and include vertical profiles up to 900 m above the ground level and horizontal transects up to 1500 m in length. These measurements have been quality controlled and are openly available in the Zenodo LAPSE-RATE community data repository (https://zenodo.org/communities/lapse-rate/, last access: 23 July 2020), with the University of Kentucky data available at https://doi.org/10.5281/zenodo.3701845 (Bailey et al., 2020)

Ringed, Bearded, and Ribbon Seal Vocalizations North of Barrow, Alaska: Seasonal Presence and Relationship with Sea Ice

The acoustic repertoires of ringed, bearded, and ribbon seals are described, along with their seasonal occurrence and relationship to sea ice concentration. Acoustic recordings were made between September and June over three years (2006 – 09) along the continental slope break in the Chukchi Sea, 120 km north-northwest of Barrow, Alaska. Vocalizations of ringed and bearded seals occurred in winter and during periods of 80% – 100% ice cover but were mostly absent during open water periods. The presence of ringed and bearded seal calls throughout winter and spring suggests that some portion of their population is overwintering. Analysis of the repertoire of ringed and bearded seal calls shows seasonal variation. Ringed seal calls are primarily barks in winter and yelps in spring, while bearded seal moans increase during spring. Ribbon seal calls were detected only in the fall of 2008 during the open water period. The repertoire of known ribbon seal vocalizations was expanded to include three additional calls, and two stereotyped call sequences were common. Retrospective analyses of ringed seal recordings from 1982 and ribbon seal recordings from 1967 showed a high degree of stability in call repertoire across large spatial and temporal scales.Le répertoire acoustique des phoques annelés, des phoques barbus et des phoques à bandes sont décrits, de même que leur présence saisonnière et leur rapport avec la concentration de glace de mer. Des enregistrements acoustiques ont été effectués entre septembre et juin sur une période de trois ans (2006 – 2009), le long de la rupture de la pente continentale, dans la mer des Tchouktches, à 120 km au nord-nord-ouest de Barrow, en Alaska. Les vocalisations de phoques annelés et de phoques barbus étaient présentes pendant l’hiver et pendant les périodes où la concentration de glace était de 80 % à 100 %, mais elles se faisaient rares pendant les périodes d’eau libre. La présence des cris de phoques annelés et de phoques barbus tout au long de l’hiver et du printemps suggère qu’une partie de leur population hiverne. L’analyse du répertoire de cris de phoques annelés et de phoques barbus indique une variation saisonnière. L’hiver, le cri du phoque annelé prend principalement la forme d’aboiements, tandis que le printemps, il prend la forme de glapissements. Les gémissements du phoque barbu s’intensifient au printemps. Le cri des phoques à bandes n’a été capté qu’à l’automne 2008, pendant la période des eaux libres. Le répertoire des vocalisations connues du phoque à bandes a été élargi pour inclure trois autres cris, bien que deux séquences de cris stéréotypées étaient courantes. L’analyse rétrospective des enregistrements de cris de phoques annelés de 1982 et de phoques à bandes de 1967 a laissé entrevoir une grande stabilité du point de vue du répertoire des cris, et ce, sur de vastes échelles spatiales et temporelles