27 Works

Data from: Evolution of sex-biased gene expression and dosage compensation in the eye and brain of Heliconius butterflies

Ana Catalan, Aide Macias-Munoz & Adriana D. Briscoe
Differences in behavior and life history traits between females and males are the basis of divergent selective pressures between sexes. It has been suggested that a way for the two sexes to deal with different life history requirements is through sex-biased gene expression. In this study, we performed a comparative sex-biased gene expression analysis of the combined eye and brain transcriptome from five Heliconius species, H. charithonia, H. sara, H. erato, H. melpomene and H....

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...

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...

Model output from N isotope global inverse model

Taylor Martin, Francois Primeau & Karen Casciotti
Global inverse nitrogen isotope model in MATLAB. Nitrogen cycle tracers include PON, DON, NO3, and NO2 for 14N and 15N. Model output optimized to three different combinations of isotope effects for nitrate reduction (eNAR), nitrite oxidation (eNXR), and nitrite reduction (eNIR) is also available.

Data from: The evolution of diapause in Rivulus (Laimosemion)

Andrew I. Furness, David N. Reznick, Andrey Tatarenkov & John C. Avise
Annual killifish adapted to life in aquatic habitat that seasonally dries have evolved desiccation resistant eggs capable of undergoing diapause, developmental arrest, at specific stages during embryology. Although noted for their remarkable abilities to live at the land-water interface, species in the genus Rivulus are considered non-annual killifish exhibiting typical teleost development patterns and no embryonic diapause. Here, we combine a molecular phylogeny with embryological study to demonstrate an independent origin of mid-embryonic diapause within...

Evolution of Northwest Greenland Glaciers

Michael Wood
In recent decades, tidewater glaciers in Northwest Greenland contributed significantly to sea level rise but exhibited a complex spatial pattern of retreat. Here, we use novel observations of bathymetry and water temperature from NASA's Ocean Melting Greenland mission to quantify the role of warm, salty Atlantic Water in controlling the evolution of 37 glaciers. Modeled ocean-induced undercutting of calving margins compared with ice advection and ice-front retreat observed by satellites from 1985 to 2015 indicate...

Jakobshavn Glacier Bed Elevation

Lu An
Jakobshavn Isbræ, West Greenland, which holds a 0.6-m sea level volume equivalent, has been speeding up and retreating since the late 1990s. Interpretation of its retreat has been hindered by difficulties in measuring its ice thickness with airborne radar depth sounders. Here, we employ high-resolution, helicopter-borne gravity data from 2012 to reconstruct its bed elevation within 50 km of the ocean margin using a three-dimensional inversion constrained by fjord bathymetry data offshore and a mass...

Southeast Greenland Bed Elevation - v2

Romain Millan
We employ NASA's Operation IceBridge (OIB) high‐resolution airborne gravity from 2016, NASA's Ocean Melting Greenland (OMG) bathymetry from 2015, ice thickness from Operation IceBridge (OIB) from 2010‐2015, and BedMachine v3 to analyze 20 major southeast Greenland glaciers. The results reveal glacial fjords several hundreds of meters deeper than previously thought; the full extent of the marine‐based portions of the glaciers; deep troughs enabling warm, salty Atlantic Water (AW) to reach the glacier fronts and melt...

Data from: Natural hybridization between divergent lineages in a selfing hermaphroditic fish

Andrey Tatarenkov, Ryan L. Earley, D.S. Taylor, William P. Davis & John C. Avise
By definition, mating between individuals is infrequent in highly selfing organisms, and so too, therefore, hybridization should be rare between genetically divergent lineages in predominantly self-fertilizing species. Notwithstanding these expectations, here we report a remarkable case of natural hybridization between highly diverged phylogeographic lineages of the mangrove rivulus, a small killifish that reproduces predominantly by self-fertilization and typically is found as highly homozygous lines in most parts of its extensive geographic range. Two distinctive genetic...

Eddy flux measurements and transfer velocities of momentum, sensible heat, water vapor, and sulfur dioxide at Scripps Pier

Eric Saltzman, Jack Porter & Warren De Bruyn
This data set contains air/sea eddy covariance fluxes and related data measured at Scripps Pier in La Jolla, California. The goal of this study was to determine transfer velocities for momentum, sensible heat, water vapor, and sulfur dioxide in order to study the process of air/sea deposition of highly soluble gases. The measurements were made during April, 2014.

Data from: Plasma metabolomic biomarkers accurately classify acute mild traumatic brain injury from controls

Massimo S. Fiandaca, Mark Mapstone, Amin Mahmoodi, Thomas Gross, Fabio Macciardi, Amrita K. Cheema, Kian Merchant-Borna, Jeffrey Bazarian & Howard J. Federoff
Past and recent attempts at devising objective biomarkers for traumatic brain injury (TBI) in both blood and cerebrospinal fluid have focused on abundance measures of time-dependent proteins. Similar independent determinants would be most welcome in diagnosing the most common form of TBI, mild TBI (mTBI), which remains difficult to define and confirm based solely on clinical criteria. There are currently no consensus diagnostic measures that objectively define individuals as having sustained an acute mTBI. Plasma...

Avannarleq and Kujalleq Glacial Stability

Lu An
The evolution of Greenland glaciers in a warming climate depends on their depth below sea level, flow speed, surface melt, and ocean-induced undercutting at the calving front. We present an innovative mapping of bed topography in the frontal regions of Sermeq Avannarleq and Kujalleq, two major glaciers flowing into the ice-choked Torssukatak Fjord, central west Greenland. The mapping combines a mass conservation algorithm inland, multi-beam echo sounding data in the fjord, and high-resolution airborne gravity...

Bathymetry of the Amundsen Sea Embayment

Romain Millan
We employ airborne gravity data from NASA's Operation IceBridge collected in 2009–2014 to infer the bathymetry of sub–ice shelf cavities in front of Pine Island, Thwaites, Smith, and Kohler glaciers, West Antarctica. We use a three‐dimensional inversion constrained by multibeam echo sounding data offshore and bed topography from a mass conservation reconstruction on land. The seamless bed elevation data refine details of the Pine Island sub–ice shelf cavity, a slightly thinner cavity beneath Thwaites, and...

Processed model data used for plots in Bondzio et al., GRL 2018

Johannes Bondzio
Large uncertainties in model parameterizations and input datasets make projections of future sea level rise contributions of outlet glaciers challenging. Here, we introduce a novel technique for weighing large ensemble model simulations that uses information of key observables. The approach is robust to input errors and yields calibrated means and error estimates of a glacier's mass balance. We apply the technique to Jakobshavn Isbr\ae{}, using a model that includes a dynamic calving law, and closely...

Data from: Bacterial microbiota assemblage in Aedes albopictus mosquitoes and its impacts on larval development

Xiaoming Wang, Tong Liu, Yang Wu, Daibin Zhong, Guofa Zhou, Xinghua Su, Jiabao Xu, Charity Faith Sotero, Adnan A. Sadruddin, Kun Wu, Xiaoguang Chen, Guiyun Yan & Xiao-Guang Chen
Interactions between bacterial microbiota and mosquitoes play an important role in mosquitoes’ capacity to transmit pathogens. However, microbiota assemblages within mosquitoes and the impact of microbiota in environments on mosquito development and survival remain unclear. This study examined microbiota assemblages and the effects of aquatic environment microbiota on the larval development of the Aedes albopictus mosquito, an important dengue virus vector. Life table studies have found that reducing bacterial load in natural aquatic habitats through...

Data from: Progressive sensitivity of trophic levels to warming underlies an elevational gradient in ant-aphid mutualism strength

Annika S. Nelson, Riley T. Pratt, Jessica D. Pratt, Richard Alexander Smith, Cole T. Symanski, Cathrine Prenot & Kailen A. Mooney
Although species interactions are often proposed to be stronger at lower latitudes and elevations, few studies have evaluated the mechanisms driving such patterns. In this study, we assessed whether, and by which mechanisms, abiotic changes associated with elevation altered the outcome of an ant-aphid protection mutualism. To do so, we characterized the multi-trophic interactions among the ant Formica podzolica, the aphid Aphis varians, and aphid natural enemies occurring on the plant Chamerion angustifolium within replicate...

Data from: Frequency-dependence shapes the adaptive landscape of imperfect Batesian mimicry

Susan D. Finkbeiner, Patricio A. Salazar, Sofia Nogales, Cassidi E. Rush, Adriana D. Briscoe, Ryan I. Hill, Marcus R. Kronforst, Keith R. Willmott & Sean P. Mullen
Despite more than a century of biological research on the evolution and maintenance of mimetic signals, the relative frequencies of models and mimics necessary to establish and maintain Batesian mimicry in natural populations remains understudied. Here we investigate the frequency-dependent dynamics of imperfect Batesian mimicry, using predation experiments involving artificial butterfly models. We use two geographically distinct populations of Adelpha butterflies that vary in their relative frequencies of a putatively defended model (Adelpha iphiclus) and...

Data from: Tropical tree diversity mediates foraging and predatory effects of insectivorous birds

Colleen S. Nell, Luis Abdala-Roberts, Victor Parra-Tabla & Kailen A. Mooney
Biodiversity affects the structure of ecological communities, but little is known about the interactive effects of diversity across multiple trophic levels. We used a large-scale forest diversity experiment to investigate the effects of tropical tree species richness on insectivorous birds, and the subsequent indirect effect to predation rates by birds. Diverse plots (4 tree species) had higher bird abundance (61%), phylogenetic diversity (61%), and functional diversity (55%) than predicted based on single-species monocultures, which corresponded...

Annual Ice Velocity of the Greenland Ice Sheet (1972-1990)

Jeremie Mouginot, Eric Rignot, Romain Millan, Michael Wood & Bernd Scheuchl
We derive surface ice velocity using data from 16 satellite sensors deployed by 6 different space agencies. The list of sensors and the year that they were used are listed in the following (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,...

Data from: Evaluating a handheld decision support device in pediatric intensive care settings

Tera L. Reynolds, Patricia R. DeLucia, Karen A. Esquibel, Todd Gage, Noah J. Wheeler, J. Adam Randell, James G. Stevenson & Kai Zheng
Objective: To evaluate end-user acceptance and the effect of a commercial handheld decision support device in pediatric intensive care settings. The technology, pac2, was designed to assist nurses in calculating medication dose volumes and infusion rates at the bedside. Materials and Methods: The devices, manufactured by InformMed Inc., were deployed in the pediatric and neonatal intensive care units in two health systems. This mixed methods study assessed end-user acceptance, as well as pac2’s effect on...

Model Setup of Thwaites Glacier

Hongju Yu
We set up our Thwaites model to study its evolution in the next 100 years. We use BEDMAP-2 data for ice surface elevation and ice shelf draft elevation (Fretwell et al., 2013). We apply the bed elevation from mass conservation on grounded ice (Morlighem et al., 2011, 2013) and the sea floor bathymetry from a gravity inversion beneath floating ice (Millan et al., 2017). We use the surface mass balance data from RACMO 2.3 (Lenaerts...

Data set for \"Planar Hall torque\"

Eric Montoya, Christopher Safranski & Ilya Krivortov
This is the data set used to generate the figures and to support the findings of "Planar Hall torque" (arXiv:1712.07335). The data set includes magnetoresistance, spin torque ferromagnetic resonance, ferromagnetic resonance, and microwave emmision data.

Weakest Link Manuscript Datasets

Lauren Pandori & Cascade Sorte
Paired data to accompany the manuscript.

Supporting Information: Toward learned chemical perception of force field typing rules

Camila Zanette, Caitlin C. Bannan, Christopher I. Bayly, Josh Fass, Michael K. Gilson, Michael R. Shirts, John D. Chodera & David L. Mobley
The Open Force Field Initiative seeks to to automate force field development in order to advance force fields and improve accuracy (openforcefield.org). An important part of this effort includes automating the determination of chemical perception --- that is, the way force field parameters are assigned to a molecule based on chemical environment. We developed a novel technology for this purpose, termed SMARTY. It generalizes atom typing by using direct chemical perception with SMARTS strings adopting...

Registration Year

  • 2018

Resource Types

  • Dataset


  • University of California, Irvine
  • University of Michigan-Ann Arbor
  • Jet Propulsion Lab
  • Grenoble Alpes University
  • Memorial Sloan Kettering Cancer Center
  • Universidade Federal de Goiás
  • Stanford University
  • Georgetown University Medical Center
  • University of California System
  • Santa Fe College