cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.51069
title: Assessing Community Health Volunteers’ Knowledge Level On Cervical Cancer In Kadibo, Kisumu County: A Cross Sectional Survey-1

description: Data set for the manuscript titled, "Assessing Community Health Volunteers’ Knowledge Level on Cervical Cancer in Kadibo, Kisumu County: A Cross Sectional Survey"
description: None
DOI: 10.5281/zenodo.51070
title: Raw Data Of Injury-Feigning Of Savanna Nightjar

description: The raw data of the manuscript "Injury-feigning of Savanna Nightjar: a test of the vulnerability and brood value hypotheses<strong>"</strong>
DOI: 10.5281/zenodo.34488
title: Md Simulation Trajectory For Popc Bilayer (Orange, Gromacs 4.5.)

description: Equilibrated POPC lipid bilayer simulation ran with Gromacs 4.5, Orange, 50ns, T=298K, 72 POPC molecules, 2880 water molecules. This data is used in the NMRLipids II project (nmrlipids.blospot.fi, https://github.com/NMRLipids/lipid_ionINTERACTION).

 

The Orange model is unpublished lipid model developed by Luca Monticelli et al. http://perso.ibcp.fr/luca.monticelli/research/index.html. Beta version of the model is used here, thus only trajectory is shared.
DOI: 10.5281/zenodo.34497
title: Md Simulation Trajectory For Popc Bilayer With 1000Mm Nacl (Orange, Gromacs 4.5.)

description: Equilibrated POPC lipid bilayer simulation ran with Gromacs 4.5, Orange, 120ns, T=298K, 72 POPC molecules, 2780 water molecules, 50 Na molecules, 50 Cl molecules. This data is used in the NMRLipids II project (nmrlipids.blospot.fi, https://github.com/NMRLipids/lipid_ionINTERACTION).

 

The Orange model is unpublished lipid model developed by Luca Monticelli et al. http://perso.ibcp.fr/luca.monticelli/research/index.html. Beta version of the model is used here, thus only trajectory is shared.
DOI: 10.5281/zenodo.34498
title: Md Simulation Trajectory For Popc Bilayer With 510Mm Cacl_2 (Orange, Gromacs 4.5.)

description: Equilibrated POPC lipid bilayer simulation ran with Gromacs 4.5, Orange, 60ns, T=298K, 72 POPC molecules, 2802 water molecules, 26 Ca molecules, 52 Cl molecules. This data is used in the NMRLipids II project (nmrlipids.blospot.fi, https://github.com/NMRLipids/lipid_ionINTERACTION).

 

The Orange model is unpublished lipid model developed by Luca Monticelli et al. http://perso.ibcp.fr/luca.monticelli/research/index.html. Beta version of the model is used here, thus only trajectory is shared.
DOI: 10.5281/zenodo.34530
title: Silvercid — A Silver Standard Corpus For Chemical-Induced Diseases Relation Extraction — Edit

description: silverCID — a silver standard corpus for Chemical-induced Diseases relation extraction — Edit
DOI: 10.5281/zenodo.50658
title: Gamma Frequency And The Spatial Tuning Of Primary Visual Cortex Pt.2

description: <strong>MEG gamma data:</strong>

S6.zip: Subject 6 MEG_MergedData S6.mat S6.dat

S7.zip: Subject 7 MEG_MergedData S7.mat S7.dat

S8.zip: Subject 8 MEG_MergedData S8.mat S8.dat

S9.zip: Subject 9 MEG_MergedData S9.mat S9.dat

S10.zip: Subject 10 MEG_MergedData S10.mat S10.dat
DOI: 10.5281/zenodo.50831
title: Root Phenotyping Data

description: Dataset presenting the root phenotyping analysis performed in the paper:


Bouché F, D’Aloia M, Tocquin P, Lobet G, Detry N, Périlleux C. 2016. Integrating roots into a whole plant network of flowering time genes in Arabidopsis thaliana. Scientific Reports.


The dataset contains:

- <strong>01-raw_images.zip</strong>: the orignal images of the petri dishes used for the analysis. The scale is 370 DPI

- <strong>02-processed_images.zip</strong>: images enhanced, cropped and renamed for the analysis. Analysis was performed using SmartRoot (Lobet et al. 2011). Each image has its corresponding RSML file containing the root architecture data. 

- <strong>plate_image_treatment.ijm</strong>: ImageJ macro for a pre-processing of the images, before the SmartRoot analysis 

- <strong>root_architecture_analysis.R</strong>: R script used for the architecture data analysis

- <strong>root_architecture_data.csv</strong> : architecture data exported from SmartRoot.

- <strong>images.zip</strong>: the plots generated using the R script
DOI: 10.5281/zenodo.50836
title: Raw Diffraction Images Of A Crystal Of Thermolysin Solved By Sad From Data Collected By Direct Data Collection (Ddc) Using The Esrf Robodiff Goniometer

description: In order to demonstrate the data collection capabilities of the RoboDiff diffraction data were collected from a crystal of thermolysin to demonstrate the suitability of the beamline MASSIF-1 and RoboDiff for ab initio phasing experiments using diffraction data collected at wavelengths at or remote from the absorption edges of the anomalous scattering elements contained in crystals.
DOI: 10.5281/zenodo.51077
title: Openaire Lod Dump

description: OpenAIRE LOD Dump
DOI: 10.5281/zenodo.51182
title: Popc @ 310K, 450 Mm Of Cacl_2. Slipids With Default Amber Ions

description: Simulations of a POPC bilayer with 450 mM of CaCl_2. <br>
The goal was to study the effect of salt on the order <br>
parameters of the lipid head group and the glycerol <br>
backbone for the NMRlipids project, see <br>
http://nmrlipids.blogspot.fi for more information.

A POPC bilayer consisting of 200 lipids (100 per leaflet) <br>
is simulated in the presence of 450 mM CaCl_2. The Slipids <br>
model [1–3] is employed for lipids, tip3p model for water, <br>
and the default amber ion parameters (type C0) for CaCl_2.

The Slipids force field parameters were downloaded from<br>
http://mmkluster.fos.su.se/slipids/

––––––––––––––––––––––––––––––––––––––––––––––––––––––

The files are in GROMACS format. Trajectory (.xtc) is <br>
100 ns long with data saved every 100 ps. These data<br>
were collected after 1900 ns of simulation. Additionally,

the initial structure (.gro), topology (.top), index file (.ndx), <br>
simulation paremeter file (.mdp), binary run input file <br>
for GROMACS v. 4.6–&gt; (.tpr) and the energy output file <br>
(.edr) are provided. 

––––––––––––––––––––––––––––––––––––––––––––––––––––––

[1] Derivation and Systematic Validation of a Refined <br>
All-Atom Force Field for Phosphatidylcholine Lipids<br>
Joakim P. M. Jämbeck and Alexander P. Lyubartsev<br>
The Journal of Physical Chemistry B 2012 116 (10), 3164-3179<br>
DOI: 10.1021/jp212503e

[2] An Extension and Further Validation of an All-Atomistic <br>
Force Field for Biological Membranes<br>
Joakim P. M. Jämbeck and Alexander P. Lyubartsev<br>
Journal of Chemical Theory and Computation 2012 8 (8), 2938-2948<br>
DOI: 10.1021/ct300342n

[3] Another Piece of the Membrane Puzzle: Extending Slipids Further<br>
Joakim P. M. Jämbeck and Alexander P. Lyubartsev<br>
Journal of Chemical Theory and Computation 2013 9 (1), 774-784<br>
DOI: 10.1021/ct300777p
DOI: 10.5281/zenodo.34597
title: Hr-Ebsd Measurements Near Twins In Zicaloy-2

description: HR-EBSD measurements made on a Zircaloy-2 sample deformed to 2.7% in tension to generate multiple deformation twins. <br>
HR-EBSD measurements were made using A Bruker HReFlash detector mounted on a Zeiss Merlin SEM. Sample preparation used Ar ion beam milling on a Gatan PECS II system as a final step. <br>
The strain, stress and dislocation density variations available here were then calculated using in-house Matlab code (XEBSD).  The work and further analysis of the results is described in

<em>Assessment of residual stress fields at deformation twin tips and the surrounding environments</em>, Abdolvand & Wilkinson, Acta Materialia (2016)<br>
dx.doi.org/10.1016/j.actamat.2015.11.036

 

 

The analysis methods implement in XEBSD are described in the following publications:

High resolution electron backscatter diffraction measurements of elastic strain variations in the presence of larger lattice rotations <br>
TB Britton and AJ Wilkinson <br>
Ultramicroscopy, (2012), vol. 114, 82-95 <br>
doi:10.1016/j.ultramic.2012.01.004

Measurement of residual elastic strain and lattice rotations with high resolution electron backscatter diffraction <br>
TB Britton and AJ Wilkinson <br>
Ultramicroscopy, (2011) vol. 111, 1395-1404 <br>
doi:10.1016/j.ultramic.2011.05.007

Determination of elastic strain fields and geometrically necessary dislocation distributions near nanoindents using electron back scatter diffraction <br>
AJ Wilkinson and D Randman <br>
Philosophical Magazine, (2010), vol. 90, 1159-1177 <br>
doi:10.1080/14786430903304145

Crystal Plasticity Analysis of Micro-Deformation, Lattice Rotation and Geometrically Necessary Dislocation Density <br>
FPE Dunne, R Kiwanuka, AJ Wilkinson <br>
Proc. Royal Society A, (2012), vol. 468, 2509-2531 <br>
doi:10.1098/rspa.2012.0050
DOI: 10.5281/zenodo.34599
title: Grain Boundary Sliding In Tin

description: Grain boundary sliding is an important deformation mechanism that contributes to creep and superplastic forming. In tin-based lead-free solders grain boundary sliding can make significant contributions to in service performance. Novel microcompression tests designed to isolate individual grain boundaries and assess their mechanical resistance to sliding were conducted on tin. The boundary sliding deformation was more obvious for smaller sample cross-sections and made a larger contribution to the overall deformation. As with dislocation and twinning mediated plasticity there was a significant size effect in which the resistance to grain boundary sliding increases as the sample size is reduced.

 

The two Excel files contain:

1. stress-displacement curves from compression tests made on micro-pillars of different sizes cut in the bi-crystal and the two constituent single crystals.

2. flow stress versus pillar size for the bi-crystal and the two constituent single crystals, along with the percentage of total deformation contributed by grain boundary sliding in the bi-crystal test pieces as a function of size.
DOI: 10.5281/zenodo.34693
title: Determining Ages Of Apogee Giants With Known Distances - Full Pdfs

description: Supplementary data to Feuillet+ (2016, ApJ, arXiv:1511.04088):

Using the APOGEE survey instrument and the NMSU 1m telescope, we observe a sample of bright, nearby, red giant stars with known distances measured by Hipparcos. By applying Bayesian analysis and hierarchical modeling, we determine individual stellar ages and the star formation histories of single alpha-abundance subsamples. The probability distribution functions (PDFs) and modeled star formation histories (SFHs) of all stars analyzed in this paper.

Data included: APOGEE/2MASS ID, the age values for PDFs in log(age), the isochrone matching likelihood function as given in Equation 4 of paper, the age PDF of a Bayesian analysis using a flat SFH (Section 4.3), the hierarchically modeled SFH using an alpha-abundance dependent Gaussian+uniform model (Section 4.6), and the age PDF of an empirical Bayesian analysis using the hierarchically modeled SFH (Section 4.6). Individual ages of stars in the paper are taken as the mean of the age PDF, however, most PDFs are non-Gaussian, which introduces complicated errors into the selection of a single age.
DOI: 10.5281/zenodo.45442
title: Snsf Open Access Monitoring: Data Publications 2013-2014

description: This spreadsheet contains supplemental data to the report: "Open Access to Publications: SNSF monitoring report 2013 - 2015" (http://doi.org/10.5281/zenodo.584131), where it was found that at least 39% of publications out of SNSF funded grants are either Gold or Green Open Access.

The initial data is based on the reported publications to the Swiss National Science Foundation via the grant administration system mySNF as of <strong>11. September 2015.</strong> This data is also available as open data on p3.snf.ch. Please be aware, that grant beneficiaries can update the metadata to the reported publications, including the Open Access status anytime during and after the end of a grant.

Prior to validation, the actual publication date of publications with “in press/accepted” status was verified insofar as possible, and the details updated (approx. 3'000 publications). For further processing only publications with <strong>publication date 2013-2014</strong> were considered. Publications with the status “in press/accepted” status were excluded. Duplicates, i.e. publications cited as output for more than one project (approx. 2'500) are also filtered out. Where identifiable as such, pure abstracts (e.g. in journal supplements), working papers and pre-prints were also excluded.

<br>
The basic goal was to locate a DOI for the publication and update the metadata. 78% of the 17'420 publications scrutinised have in the meantime been assigned a DOI. Using the DOI and the linked metadata available in CrossRef, unique searches could be performed in additional sources such as DOAJ, Pubmed and Pubmed Central, OpenAIRE (repository aggregator) and ADS (Astrophysics Data System). After the initial search for open access full text in these external sources, a search was made in Google Scholar using the DOI of the remaining publications still to be validated and links to any open access full text were extracted. Where even the Google Scholar search failed to turn up open access full text, the status was set to “closed access”. The OA status of 4'212 publications from the period 2013 to 2014 remained unclear, but it is more likely that they are in closed rather than open access mode.
DOI: 10.5281/zenodo.51185
title: Popc @ 310K, 450 Mm Of Cacl_2. Charmm36 With Default Charmm Ions

description: Simulations of a POPC bilayer with 450 mM of CaCl_2. <br>
The goal was to study the effect of salt on the order <br>
parameters of the lipid head group and the glycerol <br>
backbone for the NMRlipids project, see <br>
http://nmrlipids.blogspot.fi for more information.

A POPC bilayer consisting of 200 lipids (100 per leaflet) <br>
is simulated in the presence of 450 mM CaCl_2. The Charmm36 <br>
model [1] is employed for lipids, the Charmm compatible variant <br>
of the tip3p model for water, and the default Charmm<br>
ion parameters (type CAL) for CaCl_2.

The Charmm36 force field parameters were obtained from http://mackerell.umaryland.edu/charmm_ff.shtml

––––––––––––––––––––––––––––––––––––––––––––––––––––––

The files are in GROMACS format. Trajectory (.xtc) is <br>
100 ns long with data saved every 100 ps. These data<br>
were collected after 1900 ns of simulation Additionally,

the initial structure (.gro), topology (.top), index file (.ndx), <br>
simulation paremeter file (.mdp), binary run input file <br>
for GROMACS v. 5.0–&gt; (.tpr) and the energy output file <br>
(.edr) are provided. 

––––––––––––––––––––––––––––––––––––––––––––––––––––––

[1] Update of the CHARMM All-Atom Additive Force Field <br>
for Lipids: Validation on Six Lipid Types<br>
Jeffery B. Klauda, Richard M. Venable, J. Alfredo Freites, <br>
Joseph W. O’Connor, Douglas J. Tobias, Carlos Mondragon-Ramirez, <br>
Igor Vorobyov, Alexander D. MacKerell, Jr., and Richard W. Pastor<br>
The Journal of Physical Chemistry B 2010 114 (23), 7830-7843<br>
DOI: 10.1021/jp101759q
DOI: 10.5281/zenodo.34490
title: Md Simulation Trajectory For Popc Bilayer With 510Mm Nacl (Orange, Gromacs 4.5.)

description: Equilibrated POPC lipid bilayer simulation ran with Gromacs 4.5, Orange, 120ns, T=298K, 72 POPC molecules, 2802 water molecules, 26 Na molecules, 26 Cl molecules. This data is used in the NMRLipids II project (nmrlipids.blospot.fi, https://github.com/NMRLipids/lipid_ionINTERACTION).

 

The Orange model is unpublished lipid model developed by Luca Monticelli et al. http://perso.ibcp.fr/luca.monticelli/research/index.html. Beta version of the model is used here, thus only trajectory is shared.
DOI: 10.5281/zenodo.34843
title: Mtorc1 In Thymic Epithelial Cells Is Critical For Thymopoiesis, T-Cell Generation, And Temporal Control Of Gdt17 Development And Tcrg/D Recombination

description: FCS Files for Fig 1 to Fig 11
DOI: 10.5281/zenodo.51268
title: Geo Command-Line Bootcamp Data

description: Data used in the geo command-line bootcamp https://github.com/joeyklee/geo-commandline-bootcamp
DOI: 10.5281/zenodo.51270
title: Raw Data Acquired Necessary To Produce The Plots Introduced In The Scientific Paper: "Upper-Limb Kinematic Reconstruction During Stroke Robot-Aided Therapy" (Medical & Biological Engineering & Computing)

description: These files contain the raw data acquired necessary to produce the plots introduced the Figure 6 of the scientific paper: “Upper-limb kinematic reconstruction during stroke robot-aided therapy” (Medical & Biological Engineering & Computing).

Fig. 6 shows the data recorded from two patients performing five forward/backward movements at InMotion2 robot before and after rehabilitation treatment. Mean values of the five execution have been reported in Fig. 6.
description: This work is part of the project "Adaptive Multimodal Interfaces to Assist Disabled People in Daily Activities" funded by the European Commission's Horizon 2020 Framework Programme, Call number ICT-22-2014: Multimodal and Natural computer interaction, under Grant Agreement No 645322.
DOI: 10.5281/zenodo.51302
title: Package Couplings

description: List of package couplings of three software systems and the developer profiles.
DOI: 10.5281/zenodo.34971
title: Dataset Of Method Calls And Type-Usages Of Java Software

description: The dataset used in

Detecting Missing Method Calls as Violations of the Majority Rule (Martin Monperrus, Mira Mezini), In ACM Transactions on Software Engineering and Methodology, ACM, volume 22, 2013
DOI: 10.5281/zenodo.35015
title: Retgerger

description: regergerger
DOI: 10.5281/zenodo.35029
title: Digital Elevation Models Of Shatter Cones

description: 20 Digital Elevation Model of Shatter cones 

Haughton Dome (1 model using Helicon Focus, 1 Model from Laser Scanning)<br>
Jebal Waqf as Suwwan (1 model using Helicon Focus, 1 Model from Laser Scanning)<br>
Gosses Bluff (4 models using Helicon Focus)<br>
Serra da Cangalhia (1 model from Laser Scanning)<br>
Rochechouart (2 models from Laser Scanning)<br>
Steinheim Basin (3 models from Laser Scanning)<br>
Vargeão Dome (1 model from Laser Scanning)<br>
Vista Alegre (1 model from Laser Scanning)<br>
Vredefort (4 models from Laser Scanning)
DOI: 10.5281/zenodo.35030
title: Genetic Variation Of Morpho-Physiological Traits In An Apple Core Collection

description: Dataset used for the preparation of the manuscript “Genetic variation of morphological traits and transpiration in an apple core collection under well-watered conditions: towards the identification of morphotypes with high water use efficiency”

The dataset presented includes information for morphological and physiological traits for 183 genotypes of an INRA apple core collection. This collection was grown under well-watered condition in the Phenoarch phenotyping platform in Montpellier (France). Trees were evaluated during the first year of growth after grafting them on M9 rootstock. A first file includes individual information for four plants for each genotype. A second file includes the Best Linear Unbiased Predictors (BLUP’s) of genetic values for each morpho-physiological trait and genotype. Mixed effect models taking into account the spatial heterogeneity within the phenotyping platform were used to estimate BLUPs values.
description: For further information see 10.1371/journal.pone.or contact:
gerardo.lopez.velasco@gmail.com
evelyne.costes@supagro.inra.fr
pallas@supagro.inra.fr
DOI: 10.5281/zenodo.35137
title: Cumulative Plos Alm Report - December 2015

description: Article-Level Metrics (ALM) measure the reach and online engagement of scholarly works. This PLOS ALM report contains the cumulative stats collected for all works through December 10, 2015. Data are generated by the Lagotto open source software. Go to the Lagotto forum for questions or comments.
DOI: 10.5281/zenodo.35164
title: Allenminer V2.1 Data Files

description: This dataset accompanies the ALLENMINER software package ( http://fredpdavis.com/allenminer ) that searches gene expression in the adult and developing mouse brain and spinal cord atlases published by the Allen Institute for Brain Science.

 

ALLENIMNER v2.1 downloads these fastsearch files to accelerate searches within named brain regions.
description: {"references": ["Davis and Eddy, Bioinformatics 2009. http://dx.doi.org/10.1093/bioinformatics/btp288"]}
DOI: 10.5281/zenodo.51284
title: Moma Collection - Automatic Monthly Update

description: The Artworks dataset contains {artworks count} records, representing all of the works that have been accessioned into MoMA’s collection and cataloged in our database. It includes basic metadata for each work, including title, artist, date made, medium, dimensions, and date acquired by the Museum. Some of these records have incomplete information and are noted as “not Curator Approved.” The Artists dataset contains {artists count} records, representing all the artists who have work in MoMA's collection and have been cataloged in our database. It includes basic metadata for each artist, including name, nationality, gender (labeled "code"), birth year, death year, Wiki QID, and Getty ULAN ID.
DOI: 10.5281/zenodo.51375
title: Mcmc Chains For Distance And Structural Parameters Of Pisces A&B Dwarf Galaxies

description: These are Markov Chain Monte Carlo chains for Hubble Space Telescope observations of the dwarf galaxies Pisces A&B.  More details on how they are derived will be provided in a forthcoming ApJ paper.
DOI: 10.5281/zenodo.51438
title: Dataset For The Paper "A Catalyst Layer Optimisation Approach Using Electrochemical Impedance Spectroscopy For Pem Fuel Cells Operated With Pyrolysed Transition Metal-N-C Catalysts", J Power Sources, 2016, Doi: 10.1016/J.Jpowsour.2016.05.035

description: Data file for paper:"A catalyst layer optimisation approach using electrochemical impedance spectroscopy for PEM fuel cells operated with pyrolysed transition metal-N-C catalysts"

Daniel Malko, Thiago Lopes, Edson A. Ticianelli, Anthony Kucernak

Journal of Power Sources, 2016

DOI: 10.1016/j.jpowsour.2016.05.035

Please cite the above paper if you use this data