338 Works

Association of Serum Paraoxonase/Arylesterase Activity With All-Cause Mortality in Maintenance Hemodialysis Patients

Yasunori Suematsu, Masaki Goto, Christina Park, Ane C.F. Nunes, WangHui Jing, Elani Streja, Connie M. Rhee, Siobanth Cruz, Moti L. Kashyap, Nosratola D. Vaziri, Vasanthy Narayanaswami, Kamyar Kalantar-Zadeh & Hamid Moradi
Context: In end-stage renal disease (ESRD), serum high-density lipoprotein cholesterol (HDL-C) level is not an accurate predictor of mortality, partly because it does not necessarily correlate with indices of HDL function. Paraoxonase (PON) is a major enzyme constituent of HDL and key component of HDL antioxidant activity. Apolipoprotein (Apo) A-I is the core HDL structural protein that plays a major role in various aspects of HDL function. Objective: We sought to examine PON activity and...

Disparities of HIV risk and PrEP use among transgender women of color in South Florida.

Hector R. Perez-Gilbe, Cheryl L. Holder, Francisco J. Fajardo, Stephanie Garcia & Elena Cyrus
Background: The majority of the transgender female population in South Florida are Latina and Black, and are at greatest risk for acquiring HIV, yet there is limited research focused on South Florida transgender women of color. The study objective was to describe the disparities among racial/ethnic minority transgender women regarding HIV screening, pre exposure prophylaxis (PrEP) knowledge and PrEP utilization. Methods: Sixty transgender women, recruited from South Florida community-based organizations, completed a questionnaire on HIV...

Binding Modes of Ligands Using Enhanced Sampling (BLUES): Rapid Decorrelation of Ligand Binding Modes via Nonequilibrium Candidate Monte Carlo

Samuel Gill, Nathan Lim, Patrick Grinaway, Ariën Rustenburg, Josh Fass, Gregory Ross, John Chodera & David Mobley
Accurately predicting protein-ligand binding affinities and binding modes is a major goal in computational chemistry, but even the prediction of ligand binding modes in proteins poses major challenges. Here, we focus on solving the binding mode prediction problem for rigid fragments. That is, we focus on computing the dominant placement, conformation, and orientations of a relatively rigid, fragment-like ligand in a receptor, and the populations of the multiple binding modes which may be relevant. This...

Crystal Cove Marine Conservation Area Citizen Science Monitoring

Crystal Cove Alliance
Crystal Cove Conservancy operates the Crystal Cove Marine Protected Are Citizen Science Cruise in partnership with Newport Landing Sportfishing. Under the supervision of trained Crystal Cove Conservancy staff, junior high school and high school students collect data on fish and plankton biodiversity and nearshore water quality in the Crystal Cove Marine Conservation Area, following protocols designed in partnership with UCI and other researchers. See README file for more detailed information.Data made available in the OC...

Annual Ice Velocity of the Greenland Ice Sheet (1991-2000)

Jeremie Mouginot, Eric Rignot, Bernd Scheuchl, Romain Millan & Michael Wood
We derive surface ice velocity using data from 16 satellite sensors deployed by 6 different space agencies. The list of sensors is given in the Table S1. The SAR data are processed from raw to single look complex using the GAMMA processor (www.gamma-rs.ch). All measurements rely on consecutive images where the ice displacement is estimated from tracking or interferometry (Joughin et al. 1998, Michel and Rignot 1999, Mouginot et al. 2012). Surface ice motion is...

Data from: Multichannel Stroboscopic Videography (MSV): A technique for visualizing multiple channels for behavioral measurements.

Alberto Soto, Matthew McHenry & Theodora Po
Biologists commonly visualize dierent features of an organism using distinct sources of illumination. Multichannel imaging has largely not been applied to behavioral studies due to the challenges posed by a moving subject. We address this challenge with the technique of Multichannel Stroboscopic Videography (MSV), which synchronizes multiple strobe lights with video exposures of a single camera. We illustrate the utility of this approach with kinematic measurements of a walking cockroach (Gromphadorhina portentosa) and calculations of...

Data from: Elevational cline in herbivore abundance driven by a monotonic increase in trophic level sensitivity to aridity

Annika S. Nelson, Cole T. Symanski, Matthew J. Hecking & Kailen A. Mooney
1. The abiotic environment drives species abundances and distributions both directly and indirectly through effects on multi-trophic species interactions. However, few studies have documented the individual and combined consequences of these direct and indirect effects. 2. We studied an ant-tended aphid along an elevational gradient, where lower elevations were more arid. Hypotheses of stronger species interactions at lower elevations and a greater sensitivity of higher trophic levels to climate led us to predict increased top-down...

Data from: The role of inbreeding depression and mating system in the evolution of heterostyly

Jennifer J. Weber, Stephen G. Weller, Ann K. Sakai, Olga V. Tsyusko, Travis C. Glenn, Cesar A. Dominguez, Francisco E. Molina-Freaner, Juan Fornoni, Mike Tran, Nhu Nguyen, Karen Nguyen, Lien-Khuong Tran, Greg Joice & Ellen Harding
We investigated the role of morph-based differences in the expression of inbreeding depression in loss of the mid-styled morph from populations of tristylous Oxalis alpina as proposed by theoretical analyses. The extent of self-compatibility of reproductive morphs, the degree of self-fertilization, and the magnitude of inbreeding depression were investigated in three populations of O. alpina differing in their tristylous incompatibility relationships. All three populations exhibited significant inbreeding depression. In two populations with highly modified tristylous...

Global Ocean particulate organic phosphorus, carbon, oxygen for respiration, and nitrogen (GO-POPCORN) data from Bio-GO-SHIP cruises

Tatsuro Tanioka, Alyse Larkin, Allison Moreno, Melissa Brock, Adam Fagan, Catherine Garcia, Nathan Garcia, Skylar Gerace, Jenna Lee, Michael Lomas & Adam Martiny
Here, we present the Global Ocean Particulate Organic Phosphorus, Carbon, Oxygen for Respiration, and Nitrogen (GO-POPCORN) dataset with data from the recent Bio-GO-SHIP cruises between 2011 and 2020 supplemented with data from Arctic IERP cruises. The dataset contains 2581 paired measurements of particulate organic carbon, nitrogen, and phosphorus from 70°S to 73°N across all major ocean basins. The dataset also includes 965 measurements of particulate chemical oxygen demand. This new dataset is valuable for improving...

Data for: Longitudinal metatranscriptomic sequencing of Southern California wastewater representing 16 million people from August 2020-21 reveals widespread transcription of antibiotic resistance genes

Jason Rothman, Andrew Sagir, Seung-Ah Chung, Nicholas Boyajian, Thao Dinh, Jinwoo Kim, Jordan Oval, Vivek Sharavanan, Courtney York, Amity Zimmer-Faust, Kylie Langlois, Joshua Steele, John Griffith & Katrine Whiteson
Municipal wastewater provides a representative sample of human fecal waste across a catchment area and contains a wide diversity of microbes. Sequencing wastewater samples provides information about human-associated and medically-important microbial populations, and may be useful to assay disease prevalence and antimicrobial resistance (AMR). Here, we present a study in which we used untargeted metatranscriptomic sequencing on RNA extracted from 275 sewage influent samples obtained from eight wastewater treatment plants (WTPs) representing approximately 16 million...

An electrophysiological marker of arousal level in humans

Janna Lendner, Randolph Helfrich, Bryce Mander, Luis Romundstad, Jack Lin, Matthew Walker, Pal Larsson & Robert Knight
Deep non-rapid eye movement sleep (NREM) and general anesthesia with propofol are prominent states of reduced arousal linked to the occurrence of synchronized oscillations in the electroencephalogram (EEG). Although rapid eye movement (REM) sleep is also associated with diminished arousal levels, it is characterized by a desynchronized, 'wake-like' EEG. This observation implies that reduced arousal states are not necessarily only defined by synchronous oscillatory activity. Using intracranial and surface EEG recordings in four independent data...

The Ubiquity of Grey Literature in a Connected Content Context

Julia Gelfand
Ubiquitous or pervasive computing has become a new paradigm in computer science and networking and seeks to embed computers into all functions of daily life, where the technology may be invisible. This "calm technology" allows for some powerful new products and ways of doing things. In the library, publishing, and information arenas this may mean potentially transforming the bibliographic organization and how scholars find and use information. The social and cultural enhancements ubiquitous computing offers...

Teaching and Exposing Grey Literature: What the Information Profession Needs to Know

Julia Gelfand
GL takes on new meanings with publishers and individuals creating new products and releasing information in different ways. With several choices of release usually available in different formats, the difficulty once associated with publishing GL and the enormous expenses predicted for a relatively low volume, electronic publishing via html and pdf has created new models and opportunities. Information access in the global economy forces the information professional to be better aware of a wider spectrum...

Crosslinguistic Word Orders Enable an Efficient Tradeoff of Memory and Surprisal

Michael Hahn & Richard Futrell

Grey Literature: Taxonomies and Structures for Collection Development

Julia Gelfand
Libraries worldwide have not picked up the pace of addressing where Grey Literature fits in collection policies. This remains rather curious due to the skyrocketing prices of traditional books, journals, databases, and other information resources, and trends to serialize and promote access in perpetuity. Most collection development policies only address resources for which payment has been made, where formal acquisitions or licensing practices are observed. Due to more interest and a commitment to Open Access...

El poema crítico: una secuela de Octavio Paz en cuatro poetas mexicanos contemporáneos

Jacobo Sefamí
pp. 199-210. This article focuses on the concept of "critical poem", as analyzed by Octavio Paz, in relation to his readings of Mallarmé, in ‘Signs in Rotation’, to examine four books of Contemporary Mexican poets that establish an indirect dialogue with writing awareness, so akin to the Mexican Nobel: Cantáridas, by Elsa Cross; Negro marfil, by Myriam Moscona; Basalto, by Rocío Cerón; and Wide Screen, by Víctor Cabrera.

Figures for \"California forest die-off linked to multi-year deep soil drying in 2012-2015 drought\"

Michael Goulden
Data underlying main figures in "California forest die-off linked to multi-year deep soil drying in 2012-2015 drought", published in Nature-Geoscience, July 2019, ML Goulden and RC Bales. Abstract of paper: Widespread episodes of recent forest die-off have been tied to the occurrence of anomalously warm droughts, though the underlying mechanisms remain inadequately understood. California’s 2012-2015 drought, with exceptionally low precipitation and warmth and widespread conifer death, provides an opportunity to explore the chain of events...

Environmental drivers of adult locomotion and reproduction in a symbiont-hosting sea anemone

Samuel Bedgood
This data was collected from the sea anemone species Exaiptasia diaphana collected in the Florida Keys in January 2016. Anemones were brought into the lab where they were exposed to feeding treatments (fed or starved) and algal symbiont manipulations (high or low symbiont denisties). We collected data on movement via time lapse photography, reproduction via counting of pedal lacerates, and anemone size via photography and analysis in the program ImageJ. We found that feeding treatments...

Rhythm of Attention

Haleh Farahbod, Kourosh Saberi & Gregory Hickok
Modulation patterns are known to carry critical predictive cues to signal detection in complex acoustic environments. The current study investigated the persistence of masker modulation effects on post-modulation detection of probe signals. Hickok et al. (2015) demonstrated that thresholds for a tone pulse in stationary noise follow a predictable periodic pattern when preceded by a 3-Hz amplitude modulated masker. They found entrainment of detection patterns to the modulation envelope lasting for approximately 2 cycles after...

Solar-J and Cloud-J models version 7.6c

Michael Prather & Juno Hsu
This dataset includes the models (fortran code, matlab code, data) used to simulate the heating and photolysis rates in a spherical atmosphere. Both Solar-J v7.5 and Cloud-J v7.3c have been published previously, but with the publication of Prather and Hsu, "A round Earth for climate models" in PNAS (2019) both models have been merged in terms of overlapping subroutines and both now include option for (0) a flat-Earth atmosphere, (1) solar ray tracing through a...

Grounding line of Denman Glacier, East Antarctica from satellite radar interferometry

Virginia Brancato, Eric Rignot, Pietro Milillo, Mathieu Morlighem, Jeremie Mouginot, Lu An, Bernd Scheuchl, Seong Su Jeong, Paola Rizzoli, Jose Luiz Bueso Bello & Pau Prats-Iraola
Grounding line, elevation changes, and melt rates maps of Denman Glacier, East Antarctica. Using satellite radar interferometry from the COSMO-SkyMed mission we map the grounding line of Denman Glacier, East Antarctica. We complement these data with some historical interferometric radar acquisition from the European satellite ERS-1/2. We present new maps of elevation changes on the grounded and floating portions of Denman Glacier obtained by temporally differencing TanDEM-X Digital Elevation Models.

Striated myocyte structural integrity: automated analysis of sarcomeric z-discs

Tessa Altair Morris, Jasmine Naik, Kirby Sinclair Fibbin, Xiangdu Kong, Tohru Kiyono, Kyoko Yokomori & Anna Grosberg
As sarcomeres produce the force necessary for contraction, assessment of sarcomere order is paramount in evaluation of cardiac and skeletal myocytes. The uniaxial force produced by sarcomeres is ideally perpendicular to their z-lines, which couple parallel myofibrils and give cardiac and skeletal myocytes their distinct striated appearance. Accordingly, sarcomere structure is often evaluated by staining for z-line proteins such as alpha-actinin. However, due to limitations of current analysis methods, which require manual or semi-manual handling...

Data from: Complementarity in spatial subsidies of carbon associated with resource partitioning along multiple niche axes

Matthew Bracken
Data support analyses describing the potential for niche partitioning and complementarity in a guild of suspension-feeding rocky shore invertebrates. I focused on the mussels Perna canaliculus, Mytilus galloprovincialis, Aulacomya maoriana, and Xenostrobus pulex, all of which coexist along the coastline of the South Island of New Zealand. I quantified the mussel species’ distributions, both vertically on the shore and within the three-dimensional mussel bed matrix, and used carbon (delta13C) and nitrogen (delta15N) stable isotope ratios...

Microbiome assembly and maintenance across the lifespan of bumble bee workers

Tobin Hammer, August Easton-Calabria & Nancy A. Moran
How a host’s microbiome changes over its lifespan can influence development and aging. As these temporal patterns have only been described in detail for humans and a handful of other hosts, an important next step is to compare microbiome dynamics across a broader array of host-microbe symbioses, and to investigate how and why they vary. Here we characterize the temporal dynamics and stability of the bumblebee worker gut microbiome. Bumblebees are a useful symbiosis model...

Data from: Size-resolved chemical composition of sub-20 nm particles from methanesulfonic acid reactions with methylamine and ammonia

Veronique Perraud, Xiaoxiao Li, JingKun Jiang, Barbara Finlayson-Pitts & James Smith
Particle formation in the atmosphere from gas-phase precursors has been observed around the world; however, our fundamental understanding of the key species responsible and mechanisms involved remains uncertain. Recent laboratory studies demonstrated that acid−base reactions involving methanesulfonic acid (CH3SO3H, MSA) and small alkylamines may contribute significantly to new particle formation. To date, most of the investigations have been focused on particle number concentration and size distribution measurements in combination with quantum chemistry predictions of the...

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