cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7294/15144288.v1
title: analysis of damping vs CoGd spin-sink thickness

description: data of Gilbert damping enhancement vs CoGd spin-sink thickness & MATLAB code to fit the data (e.g., Fig. 6 in 10.1103/PhysRevB.103.024443), based on the modified spin-diffusion model in Taniguchi et al. (10.1109/TMAG.2008.2003036)<div><br></div><div><p>Abstract of the associated article (10.1103/PhysRevB.103.024443)
- It has been predicted that transverse spin current can propagate coherently
(without dephasing) over a long distance in antiferromagnetically ordered
metals. Here, we estimate the dephasing length of transverse spin current in
ferrimagnetic CoGd alloys by spin pumping measurements across the compensation
point. A modified drift-diffusion model, which accounts for spin-current
transmission through the ferrimagnet, reveals that the dephasing length is
about 4–5 times longer in nearly compensated CoGd than in ferromagnetic metals.
This finding suggests that antiferromagnetic order can mitigate spin
dephasing—in a manner analogous to spin echo rephasing for nuclear and qubit
spin systems—even in structurally disordered alloys at room temperature. We
also find evidence that transverse spin current interacts more strongly with
the Co sublattice than the Gd sublattice. Our results provide fundamental
insights into the interplay between spin current and antiferromagnetic order,
which are crucial for engineering spin torque effects in ferrimagnetic and
antiferromagnetic metals.</p></div>
DOI: 10.7294/vqtf-cr21
title: Coweeta hillslope soil model drainage experiments 2016-17

description: The data file is a .csv file that has Time (d) and Outflow (L/d) for all iterations of the drainage experiments (i.e., original, experiment replicates, and HYDRUS model simulations). The data and experiments are fully described in Lee et al. 

Lee, R. M., McGuire, K. J., Strahm, B. D., Knoepp, J. D., Jackson, C. R., Stewart, R. D., 2020. Revisiting the Hewlett and Hibbert (1963) hillslope drainage experiment and modeling effects of decadal pedogenic processes and leaky soil boundary conditions. Water Resources Research, 56, doi: 10.1029/2019WR025090.
DOI: 10.7294/17153288.v1
title: Study of water flow under gravity and pressure through granular solids

description: <p>
These
experiments concern the movement of water through soil. The principal
variable of interest is the volume of water that has passed
vertically through a column of soil observed at regular time
intervals. The core of the experimental apparatus is a vertical tube
(the test section) that is roughly 2 m long with a 3.18 cm inner
diameter. The lower portion of the test section is filled with a
sample of soil (200 mL) followed by a volume of water (1200 mL). In
each experiment, this water is allowed to pass downward through the
soil sample and out through a 0.95 cm diameter hole. From there,
expelled water passes through a short flexible tube into a collection
beaker. The volume in the collection beaker is monitored by an
automated system with a sampling frequency of 10 Hz. More accurately,
the level of water in the beaker is monitored with a laser ranging
device, the beam of which is reflected off of buoyant opaque
particles -- flakes of dried parsley -- that remain on the surface as
the beaker fills. The apparatus is also fitted with a system for
pressurizing the test section to a constant pressure up to a maximum
of around 1200 hPa (1.2 atm).</p>
DOI: 10.7294/7fn0-dy54
title: Geotechnical Investigation and Characterization of Bivalve-Sediment Interactions (V2)

description: A variety of field and laboratory instrumentation were utilized to geotechnically investigate and characterize bivalve-sediment interactions for three different field sites. The three field sites are the Piankatank River in Virginia, the Northwest Arm of the Sydney Harbour in Nova Scotia, Canada, and the Rachel Carson Reserve in North Carolina. This dataset encompasses the raw and processed data needed to reproduce the results in the associated publications. To access the content associated with this dataset not available for download in VTechData, please follow the instructions provided in and with 'DirectionsToAccessFileViaGlobus_Field Survey Data.txt'. This dataset was updated on 20200605 with additional data points in the 'ReadMe_Data Publication Overview.txt' file, 'Roundness and Sphericity Workbook.xlsx' file in the 'Laboratory Testing Data, Analyses and Results' folder, 'Vacuum Triaxial Summary Table.xlsx' file in the 'Laboratory Testing Data, Analyses and Results' folder, and 'QSBC Method for Friction Angle Workbook_PR_RCR.xlsx' file in the 'Field Survey Data' folder. The original dataset can be found at the following DOI, doi:10.7294/66gv-gy31.
DOI: 10.7294/14113193.v1
title: Labeled Hyperspectral and RGB Images of Several Tree Species

description: A dataset of hyperspectral and RGB images of different tree species on the Virginia Tech campus. These images were captured at different lighting and exposure levels and include labeling information that will allow for classification tasks to be performed. The dataset is designed to highlight differences in classification accuracy and techniques when using traditional RGB images as opposed to hyperspectral images. Each image is stored in a .zip file separate from the required header file. For usage instructions refer to the README file within the database.
DOI: 10.7294/9r6z-yw12
title: Characterizing Virginia Localities and School Divisions (public dataset)

description: This dataset contains information characterizing Virginia's counties, cities and local education agencies (or school divisions).  The dataset was created to assist researchers using the Virginia Longitudinal Data system (VLDS) as part of the Building Research Infrastructure and Community Project (BRIC).  Original data sources together with other metadata notes are included with each datafile.

 The set contains 9 datafiles:  
•	Virginia Locality and School Division Geographic and Select Population Data
•	Virginia Locality and School Division Select Characteristics Composite
•	Locality and Division Economic Sector and Population Characteristics 2010 - 2015
•	Virginia Economic Education Resources by Division
•	School personnel salaries 2005-2017
•	Virginia Composite Index 2004-2018 Local-Ability-to-Pay-Education-Service
•	Virginia County Health Rankings 2010-2017 with School Divisions
•	Virginia School Divisions and Legislative Information 2015
•	Rural-Urban Commuting Areas, Virginia 2006-2010
DOI: 10.7294/w4jw8c2r
title: Homology Modeling and Protein-Protein Structure Files

description: The circadian clock relies on posttranslational modifications to set the timing for degradation of core regulatory components, which drives clock progression. Ubiquitin-modifying enzymes that target clock components for degradation mainly recognize phosphorylated substrates. Degradation of the circadian clock component PERIOD 2 (PER2) is mediated by its phospho-specific recognition by b-transducin repeat–containing proteins (b-TrCPs), which are F-box–containing proteins that function as substrate recognition subunits of the SCFb-TRCP ubiquitin ligase complex. However, this mode of regulating PER2 stability falls short of explaining the persistent oscillatory phenotypes reported in biological systems lacking functional elements of the phospho-dependent PER2 degradation machinery. We identified PER2 as a previously uncharacterized substrate for the ubiquitin ligase mouse double minute 2 homolog (MDM2) and found that MDM2 targeted PER2 for degradation in a manner independent of PER2 phosphorylation. Deregulation of MDM2 plays a major role in oncogenesis by contributing to the accumulation of genomic and epigenomic alterations that favor tumor development. MDM2-mediated PER2 turnover was important for defining the circadian period length in mammalian cells, a finding that emphasizes the connection between the circadian clock and cancer. Our results not only broaden the range of specific substrates of MDM2 beyond the cell cycle to include circadian components but also identify a previously unknown regulator of the clock as a druggable node that is often found to be deregulated during tumorigenesis.
DOI: 10.7294/w4057cvg
title: Variegatic acid from Serpula lacyrmans reduces FeIII and interacts with other fungal metabolites for location-specific generation and scavenging of reactive oxygen species

description: This study aims to clarify the role of variegatic acid (VA) secreted from Serpula lacyrmans in a chelator-mediated Fenton (CMF) system, including FeIII reduction and the generation of reactive oxygen species (ROS) in the presence of H2O2 and oxalate. As the principle component of the fungal extracellular matrix (ECM), β-glucan isolated from Basidiomycota species was also assessed in scavenging ROS with regard to its potential as a protective barrier for fungal hyphae. Our results demonstrate that VA was effective in reducing FeIII and promoting ROS generation. It is known that oxalate is necessary for solubilization of iron, but both iron reduction and ROS generation were impeded in the presence of oxalate. However, we observed that a higher pH (4.4) favored FeIII transfer from oxalate to VA to drive Fenton-based ROS generation as opposed to a lower pH (2.2), which would be found within the ECM. We propose that a pH-dependent FeIII transfer to VA is employed by S. lacyrmans to permit ROS generation within the higher pH wood cell wall, while limiting ROS production near the fungal hyphae. Further, β-glucan was found to scavenge ROS in acid environments and we postulate that this allows ROS scavenging within the ECM to further limit damage to the fungal hyphae when CMF reactions are active. Data support a role for the ECM in protecting fungal hyphae from ROS generated during decay processes and also support a potential role for a VA-mediated Fenton system in deconstruction of lignocellulose materials by S. lacyrmans.

This work was financially supported in part by the Forestry Industry Research Special Funds for Public Welfare Projects (#201204702-B2), and was also supported in part by the USDA-HATCH Project S-1041 VA-136288, and by The Research Council of Norway (243663/E50 BioMim). Mr. Zhu was financially supported by China Scholarship Council (#201406510014). The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.
DOI: 10.7294/w41z429p
title: Supporting code and data for dissertation: "large-area forest assessment and monitoring using disparate lidar datasets"

description: The focus of the work was on combining disparate lidar datasets with national forest inventory data (FIA) to generate forest parameters maps (such as canopy height) over large areas.  More details about this dataset can be found in the README file. To access the content associated with this dataset please follow the instructions provided in and with the Related URL.
DOI: 10.7294/bqb2-4d82
title: Tapping birdwatchers to promote bird-friendly coffee consumption and conserve birds - Dataset

description: Online survey data and survey instrument to accompany Williams, Dayer, Hernandez-Aguilera, Phillips, Faulkner-Grant, Gomez, and Rodewald (2021) in People and Nature. This online survey was conducted from September 8th to October 3rd, 2016 via Qualtrics. The sample of 5,000 was drawn from Cornell Lab of Ornithology members or donors who gave at least $100. We sent participants an email solicitation from the Lab of Ornithology with an individualized link to the survey. Up to three reminder emails were sent to those who had not completed the survey. The survey was conducted with approval from the Cornell University Institutional Review Bird for Human Participants Participants (Protocol #1608006552). Overall, 1354 people responded to the survey. The overall response rate was 27%.
DOI: 10.7294/17192963.v1
title: Inversion Results associated with JGR Solid Earth Publication: Joint Inversion of GNSS and GRACE for Terrestrial Water Storage Change in California by Carlson et al.

description: This dataset contains results from an inversion of deformation data and GRACE data for terrestrial water storage change over California from January 2003 - December 2016.<div><br></div><div>This dataset is for plotting or using terrestrial water storage change
calculated across California and western Nevada from January 2003 – December
2016 using GNSS vertical deformation and GRACE JPL mascon products. The
inversion results are given for an inversion using only GNSS data as well as a
joint inversion of GNSS and GRACE. Each set of inversion results corresponds to
the same dates given in DT.csv and grid cell locations given by
GridCenters.csv. All inversion results are given in meter equivalent water
height.<br></div>
DOI: 10.7294/w4-j92h-ka06
title: The road to deforestation: edge effects in an endemic ecosystem in Sumatra, Indonesia

description: Worldwide, roads are a main driver of deforestation and degradation as they increase forest access along the forest edge. In many tropical areas, unofficial roads go unreported and unrecorded, resulting in inaccurate estimates of intact forested areas. This is the case in central Sumatra, which boasts populations of critically endangered Sumatran elephants (Elephas maximus sumatrensis), tigers (Panthera tigris sumatrae) and other endemic flora and fauna that make the area globally unique. However, maps do not reflect the reality of forest loss in the area. Here we present new maps from 2002 and 2016 of digitized and ground-truthed roads in one of Sumatra’s unique lowland tropical protected areas, Tesso Nilo National Park. Using our newly created roads dataset, we examine the distribution of forest with respect to distance to roads. Our data show >2,400 km of roads within the national park in 2016 – nearly a 10-fold increase from roads known in 2002. Most forest (82-99%) within Tesso Nilo falls within 100 m, 500 m, and 1000 m of road edges. Length of road increased 157% and road density increased from 1.06 km/km2 to 2.63 km/km2 from 2002 - 2016. Our results suggest that this endemic ecosystem is facing substantial threat from roads and their associated impacts. Without swift management action, such as road closures and increased enforcements by park management, this ecosystem, and its endemic wildlife, could be lost. It is imperative that protected areas worldwide more rigorously consider roads and road effects on ecosystem fragmentation in their conservation plans. This work was completed with the support of the World Wildlife Fund, the Philadelphia Zoo, the National Science Foundation [Grant Number 1536323], the Cleveland Zoo, the Riverbanks Zoo, Ideawild, the US Student Fulbright Program and Virginia Tech.
DOI: 10.7294/6y9v-gg39
title: Global Agricultural Supplies of Human Edible Nutrients, Their Sources, And Their Correlation with Agricultural Environmental Impacts

description: Data used for analyses described in White (TBD), Global Agricultural Supplies of Human Edible Nutrients, Their Sources, And Their Correlation with Agricultural Environmental Impacts.
DOI: 10.7294/17710898.v1
title: NASA 36.356 Rocket Profile of Nitric Oxide in the Polar Night

description: <p>The associated date file contains retrieved nitric oxide volume
and column densities in the mesosphere and lower thermosphere as a function of
altitude. The observations were made under polar night conditions.</p><p><br></p><p><br></p>
DOI: 10.7294/v8w6-7760
title: data associated with "How Cholesterol Stiffens Unsaturated Lipid Membranes"

description: Cholesterol is an integral component of eukaryotic cell membranes and a key molecule in controlling membrane fluidity, organization, and other physicochemical parameters. It also plays a regulatory function in antibiotic drug resistance and the immune response of cells against viruses, by stabilizing the membrane against structural damage. While it is well understood that, structurally, cholesterol exhibits a densification effect on fluid lipid membranes, its effects on membrane bending rigidity are assumed to be nonuniversal; i.e., cholesterol stiffens saturated lipid membranes but has no stiffening effect on membranes populated by unsaturated lipids, such as 1,2-dioleoyl-sn-glycero-3-phosphocholine (DOPC). This observation presents a clear challenge to structure-property relationships and to our understanding of cholesterol-mediated biological functions. Here, using a comprehensive approach – combining neutron spin-echo (NSE) spectroscopy, solid-state deuterium nuclear magnetic resonance (2H NMR) spectroscopy, and molecular dynamics (MD) simulations – we report that cholesterol locally increases the bending rigidity of DOPC membranes, similar to saturated membranes, by increasing the bilayer’s packing density. All three techniques, inherently sensitive to mesoscale bending fluctuations, show up to a 3-fold increase in effective bending rigidity with increasing cholesterol content approaching a mole fraction of 50%. Our observations are in good agreement with the known effects of cholesterol on the area compressibility modulus and membrane structure, reaffirming membrane structure-property relationships. The current findings point to a scale-dependent manifestation of membrane properties, highlighting the need to reassess cholesterol’s role in controlling membrane bending rigidity over mesoscopic length and time scales of important biological functions, such as viral budding and lipid-protein interactions.
DOI: 10.7294/w4d21vrb
title: Impact of surface topography on biofilm formation by Candida albicans

description: Candida albicans is a fungal pathogen that causes serious biofilm-based infections.  Here we have asked whether surface topography may affect C. albicans biofilm formation.  We tested biofilm growth of the prototypical wild-type strain SC5314 on a series of polydimethylsiloxane (PDMS) solids.  The surfaces were prepared with monolayer coatings of monodisperse spherical silica particles that were fused together into a film using silica menisci.  The surface topography was varied by varying the diameter of the silica particles that were used to form the film.  Biofilm formation was observed to be a strong function of particle size.  In the particle size range 4.0–8.0 µm, there was much more biofilm than in the size range 0.5–2.0 µm.  The behavior of a clinical isolate from a clade separate from SC5314, strain p76067, showed results similar to that of SC5314.  Our results suggest that topographic coatings may be a promising approach to reduce C. albicans biofilm infections.
The data set contains the image files  obtained using confocal microscopy.
DOI: 10.7294/apwt-br08
title: Characterizing Virginia Public Schools (public dataset)

description: This dataset contains four separate files that characterize Virginia PK-12 public schools. Each datafile has explanatory notes and data dictionaries, where appropriate.  The dataset was created to assist researchers using the Virginia Longitudinal Data System (VLDS) as part of  the Building Research Infrastructure and Community Project (BIRC).

The dataset contains the following datafiles:

•	Virginia Public Schools Structure and Student Population 2008-2017
•	Annual Yearly Progress (AYP) – Virginia K-12 Schools Accreditation 2012-216
•	Free and Reduced Lunch Eligibility, by School and School Type, 2008-2017
•	Virginia Public Schools 2016: Structure, GIS Coordinates and Free/Reduced Eligibility
DOI: 10.7294/mht5-ef87
title: ThurairajahETAL_JGR2019

description: An eight year data set of Gravity Wave (GW) momentum flux and amplitude has been computed for May, June, July and August of years 2007-2014 from the SABER/TIMED temperature measurements. This data in combination with GW data from the SOFIE instrument on the AIM satellite are used to analyze the influence of vertically vs obliquely propagating GWS on the summer polar mesosphere. The oblique propagation of GWs is confirmed using the GROGRAT ray-tracing simulations. The logs and data from the simulation results are also archived here. The data sets in this repository are the SABER and GROGRATS data analyzed to produce the corresponding Figures in the manuscript titled “Influence of gravity waves on the polar summer mesosphere: The role of obliquely propagating monsoon gravity waves” that has been submitted to the Journal of Geophysical Research in October 2019. IDL code to read the SABER and GROGRAT data sets are provided .
Corresponding author: Dr. Brentha Thurairajah (brenthat@vt.edu).
DOI: 10.7294/16850347.v1
title: The first true millipede: 1,306 legs long

description: High resolution images underlying figure 1 and supplementary figures S1-S4, S6-S8, and S10.
DOI: 10.7294/w6zy-3h28
title: Wire-tailed manakin cooperative behavior and testosterone data (SUPERSEDED)

description: (This dataset is superseded by the one linked from DOI 10.5061/dryad.fttdz08nv and is also referenced below.) Many studies have identified the reproductive benefits of cooperative behaviors, yet few have focused on identifying the mechanisms that underlie these behaviors. Mechanistic studies can not only inform our understanding of why some individuals are more or less cooperative, but they can also identify the physiological constraints imposed upon the evolution of reproductive traits. To further our understanding of the mechanistic basis of cooperation, we measured the relationship between circulating testosterone and the cooperative courtship behaviors of territory-holding, male wire-tailed manakins. We then experimentally tested our observational results by implanting males with either a testosterone-filled or empty (i.e., control) silastic implant and measuring the effects on cooperative behavior. Because male-male cooperation occurs in the form of coordinated courtship displays in this species, our study design examined both the hormonal and social drivers of individual variation in cooperative behavior (e.g., cooperative display bouts) as well as courtship behavior more broadly (e.g., display rates). Our observational study revealed that males with higher testosterone levels performed fewer cooperative display bouts. Furthermore, in our experimental implant study, males significantly decreased the proportion of their displays that were cooperative. We found no relationship between an individual’s courtship display effort (i.e., display rate and time spent performing courtship displays) and circulating testosterone in either study. However, more cooperative males spent a greater proportion of time performing courtship displays than did less cooperative males, suggesting that testosterone may indirectly mediate courtship display behaviors by influencing a territory holder’s cooperative behavior. Overall, both our observational and experimental results suggest that reduced cooperative behavior is a cost of maintaining high levels of testosterone.
DOI: 10.7294/0rzz-8982
title: Code for "A Tale of Three Scales" berry scale paper

description: This is a dataset associated with the manuscript 'A Tale of Three Scales', submitted to Food Quality & Preference in 2020.  The three files allow for the replication of the results, figures, and tables in the paper.
DOI: 10.7294/zgr9-9g86
title: A systematic analysis of the salinity effect on air bubbles evolution: laboratory experiments in a breaking wave analog

description: The effect of water salinity on air entrainment and surface foam evolution in breaking waves was studied in a laboratory breaking wave analog. This dataset contains the raw data extracted from the experiments. The results submitted for publication in the Journal of Geophysical Research: Oceans (Manuscript#: 2019JC015337) show a distinct effect of salinity on subsurface bubbles, surface foam bubbles and whitecap area. Our findings are discussed in the light of bubble mediated droplets emission from breaking waves at the air-water interface.