cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.13012/b2idb-5026417_v1
title: NEXUS file for Phylogenetic analysis of the Idiocerus genus group (Hemiptera: Cicadellidae)

description: The text file contains the original DNA nucleotide sequence data used in the phylogenetic analyses of Xue et al. (in review), comprising the 13 protein-coding genes and 2 ribosomal gene subunits of the mitochondrial genome. The text file is marked up according to the standard NEXUS format commonly used by various phylogenetic analysis software packages. The file will be parsed automatically by a variety of programs that recognize NEXUS as a standard bioinformatics file format. The first six lines of the file identify the file as NEXUS, indicate that the file contains data for 30 taxa (species) and 13078 characters, indicate that the characters are DNA sequence, that gaps inserted into the DNA sequence alignment are indicated by a dash, and that missing data are indicated by a question mark. The positions of data partitions are indicated in the mrbayes block of commands for the phylogenetic program MrBayes (version 3.2.6) beginning near the end of the file. The mrbayes block also contains instructions for MrBayes on various non-default settings for that program. These are explained in the Methods section of the submitted manuscript. Two supplementary tables in the provided PDF file provide additional information on the species in the dataset, including the GenBank accession numbers for the sequence data (Table S1) and the DNA substitution models used for each of the individual mitochondrial genes and for different codon positions of the protein-coding genes used for analyses in the programs MrBayes and IQ-Tree (version 1.6.8) (Table S2). Full citations for references listed in Table S1 can be found by searching GenBank using the corresponding accession number. The supplemental tables will also be linked to the article upon publication at the journal website.
DOI: 10.13012/b2idb-6415287_v1
title: 3DIFICE: A Synthetic Dataset for Training Computer Vision Algorithms to Recognize Earthquake Damage to Reinforced Concrete Structures

description: 3DIFICE: 3-dimensional Damage Imposed on Frame structures for Investigating Computer vision-based Evaluation methods This dataset contains 1,396 synthetic images and label maps with various types of earthquake damage imposed on reinforced concrete frame structures. Damage includes: cracking, spalling, exposed transverse rebar, and exposed longitudinal rebar. Each image has an associated label map that can be used for training machine learning algorithms to recognize the various types of damage.
DOI: 10.6084/m9.figshare.20371677.v1
title: Bleaching Corallivory Dataset

description: This dataset accompanies the manuscript " Shifts in predator behavior following climate induced disturbance on coral reefs" by Rotjan & Ray et al.
DOI: 10.17632/8rzc45vp77.1
title: Stability and biocompatibility of a Bionic Eye - Histology and immunohistochemistry data

description: Data related to: Implantation and long-term assessment of the stability and biocompatibility of a novel 98 channel suprachoroidal visual prosthesis in sheep

In Eggenberger et al., nine sheep of the Suffolk (N=2) and Dorper (N=7) breeds were implanted in the left eye with a suprachoroidal retinal stimulator (Bionic Eye) for durations up to 100 days. The surgical safety, implant stability and device biocompatibility were assessed.

All procedures were performed conducted in accordance with the Australian Code for the Care and Use of Animals for Experimental Purposes 8th edition (2013) and the ARVO standards for use of animals in ophthalmic research and approved by the Animal Care and Ethics Committee (ACEC) of UNSW Sydney (protocol number 14/155B) .

Animal identifier:
Animals were identified according to the experimental group to which they were assigned (duration of experiment 2 days, 1 month, 2 months and 3 months.
E.g.: 2D#1 was the first animal in the group implanted for a duration of 2 Days. 3M#3 was the third animal in the group implanted for 3 Months.

Heamatoxylin and eosin staining:
Sections were then stained with Harris Hematoxylin (7 min; prior to bluing in running tap water for 4 min) and eosin (4 min).

Immunohistochemistry:
GFAP-Cy3 conjugate (mouse IgG; 1:800); cone photoreceptors: opsin-red/green (opsin R/G) (rabbit IgG; 1:500, 1:1000) (Merck Millipore) and macrophage/microglia: Iba1 (goat IgG; 1:200) (Abcam, USA).
Secondary antibodies to goat IgG, mouse IgG, or rabbit IgG, conjugated with Alexa-Fluor 488, 555, or 647 (Invitrogen, USA).
Nuclei: Hoechst 33258 (1:10,000)
Mounting in glycerol:PBS (80:20)
All images were captured using an LSM 700 Meta Confocal microscope system and ZEN Blue software (Carl Zeiss, Germany). Images were assembled in Photoshop CS software (Adobe Corporation, USA).
DOI: 10.17632/zyh4bx54zp.1
title: Nelson et al. Dataset 1

description: Nelson et al. Datasets
DOI: 10.17632/8rzc45vp77.2
title: Stability and biocompatibility of a Bionic Eye - Histology and immunohistochemistry data

description: Data related to: Implantation and long-term assessment of the stability and biocompatibility of a novel 98 channel suprachoroidal visual prosthesis in sheep

In Eggenberger et al., nine sheep of the Suffolk (N=2) and Dorper (N=7) breeds were implanted in the left eye with a suprachoroidal retinal stimulator (Bionic Eye) for durations up to 100 days. The surgical safety, implant stability and device biocompatibility were assessed.

All procedures were performed conducted in accordance with the Australian Code for the Care and Use of Animals for Experimental Purposes 8th edition (2013) and the ARVO standards for use of animals in ophthalmic research and approved by the Animal Care and Ethics Committee (ACEC) of UNSW Sydney (protocol number 14/155B) .

Animal identifier:
Animals were identified according to the experimental group to which they were assigned (duration of experiment 2 days, 1 month, 2 months and 3 months.
E.g.: 2D#1 was the first animal in the group implanted for a duration of 2 Days. 3M#3 was the third animal in the group implanted for 3 Months.

Heamatoxylin and eosin staining:
Sections were then stained with Harris Hematoxylin (7 min; prior to bluing in running tap water for 4 min) and eosin (4 min).

Fluorescence Immunohistochemistry:
10um paraffin sections. GFAP-Cy3 conjugate (mouse IgG; 1:800); cone photoreceptors: opsin-red/green (opsin R/G) (rabbit IgG; 1:500, 1:1000) (Merck Millipore) and macrophage/microglia: Iba1 (goat IgG; 1:200) (Abcam, USA).
Secondary antibodies to goat IgG, mouse IgG, or rabbit IgG, conjugated with Alexa-Fluor 488, 555, or 647 (Invitrogen, USA).
Nuclei: Hoechst 33258 (1:10,000)
Mounting in glycerol:PBS (80:20)
All images were captured using an LSM 700 Meta Confocal microscope system and ZEN Blue software (Carl Zeiss, Germany). Images were assembled in Photoshop CS software (Adobe Corporation, USA).

Iba1 immunoperoxidase and quantitative analysis:
4um paraffin sections. High pH buffer heat antigen retrieval (Target Retrieval Solution, S2367, DAKO®), blocking (Bloxall, SP6000, VectorLabs®), primary antibody (macrophage/microglia, clone Iba1, BioCare Medical®, rabbit polyclonal, 1:200), secondary (Envision K5007, DAKO®), chromogen ImmPACT Nova Red (SK4805, Vector Labs®), counterstained: haematoxylin (Whitlocks, VPDS Histo Lab Manual©, 2021). Negative controls processed identically with primary antibody omitted. 
Sections scanned with Aperio Versa (Leica Biosystems®, UK) at 40x.
Quantitative analysis using ImageScope™ Positive Pixel Count algorithm with the following parameters: hue value 0, hue width 0.4, colour saturation threshold 0.25, weak positive pixels (high) 160, positive pixels  (high) 140, strong positive pixels  (high) 120, strong positive pixels (low) 0, negative pixels  (high)  -1. Retinas  outlined manually in ImageScope™ .
DOI: 10.17632/35yf3tcgjp.1
title: Data of Schools in Saudi Arabia

description: It includes the data of energy consumption, building size, information, etc. of schools in Saudi Arabia.
DOI: 10.17632/bsh4gmg8s5.1
title: ISSC 2022 Committee III.1-Ultimate Strength Benchmark Data

description: Overview

This page provides a zip file for a benchmark study by the 21st International Ship and Offshore Structures Congress (ISSC) Committee III.1-Ultimate Strength. The files include test details, drawings, material data, geospatial measurements, and results for ultimate strength tests on a newly built grillage, ATC-1 that have been generated by Naval Surface Warfare Center Carderock Division under funding from the US Navy's Office of Naval Research (ONR) Advanced Naval Platforms Division under the direction of Dr. Paul Hess. The folder “General Information” contains a detailed description of the study as well as a presentation on the experimental setup. 

Folder Structure

General Information: Contains the study description, experimental setup, fabrication drawings
Phase 1: Files distributed under Phase 1 of the study, namely a CAD model (IGES and STEP) and nominal data on the grillage properties
Phase 2: Files distributed under Phase 2 of the study, namely data on measured (actual) structural properties as well as metrological data (point clouds) describing the as-constructed grillage shape
Phase 3: Files distributed under Phase 1 of the study, namely precise thickness measurements, material acceptance certificates, and tensile test results
Result: Load-shortening data for the ATC-1 grillage as well as test video
Photos: Photos of the ATC-1 grillage at various phases in the testing cycle

Release and Distribution of Data

The information is approved for public release with unlimited distribution per DoDI 5230.24. Usage of this data is unlimited. Unless required by applicable law or agreed to in writing, the data is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied and the US Government shall not be held liable for its use or misuse. 

Support

Questions regarding this data should be forwarded to either:

Paul Hess, // paul.hess@navy.mil
Office of Naval Research

Ken Nahshon // ken.nahshon@navy.mil
Naval Surface Warfare Center Carderock Division
DOI: 10.17632/c5x7ckcfsp.1
title: 3D-EBSD data and analysis of Ti-6Al-4V fabricated using electron powder bed fusion with a random scan strategy (R3) 

description: This data is a companion to the manuscript '3D Electron backscatter diffraction characterization of fine α titanium microstructures: collection, reconstruction, and analysis methods', by Ryan DeMott, Nima Haghdadi, Charlie Kong, Ziba Gandomkar, Matthew Kenney, Peter Collins, and Sophie Primig, currently submitted to Ultramicroscopy. It includes the raw data and code used for analysis of a slightly truncated version of the 'random' dataset which appears in that manuscript as well as DeMott, R., Haghdadi, N., Gandomkar, Z. et al. 3D characterization of microstructural evolution and variant selection in additively manufactured Ti-6Al-4 V. J Mater Sci 56, 14763–14782 (2021). https://doi.org/10.1007/s10853-021-06216-2 and DeMott, R., Haghdadi, N., Liao, X. et al. Formation and 3D Morphology of Interconnected α Microstructures in Additively Manufactured Ti-6Al-4V.  Acta mater. In Review.

Please cite the above publications and acknowledge the authors if using this data or code in your own work.

The files include the raw EBSD scans as a library of .ctf files, the pipeline for reconstructing and analyzing the data using the DREAM.3D software package, and the code used for performing further analysis of the data with the MTEX toolbox for MATLAB.

DREAM.3D v6.5.138 , MATLAB R2019b, and MTEX v5.1.1 were the software versions used.

RandomCTFFiles.zip contains the library of .ctf files

The DREAM3D pipelines include ImportCTFLibrary.json, which generates an H5EBSD file from the ctf library and FullReconstruction.json, which includes all of the steps described in chapter 4 of the manuscript. A new user may find it easier to split it into several shorter pipelines with outputs at each step.

The MTEX code folder includes all of the MATLAB functions and scripts used for the analyses described in chapter 5 of the manuscript.

AssignBoundaryTypes.m is a function which uses a .dream3d file path and tolerance to classify intervariant boundary types as described in section 5.1
TripleJunctByNodes.m is a script which uses the functions AssignBoundaryTypes.m and TriadPlot.m to classify and plot three-variant clusters in terms of triple junctions as described in section 5.1 (figure 10a)
PlotTriads.m is a script which uses the functions findTriads.m, AssignBoundarTypes.m, and TriadPlot.m to classify and plot three-variant clusters in terms of mutally neighboring grains as described in section 5.2 (figure 10b)
NewAssignVariants.m is a script for assigning grains to variants as described in section 5.3
DOI: 10.17632/hvn5568tzh.1
title: Zonal wave 3 Pattern in the Southern Hemisphere generated by tropical convection

description: Data files from atmospheric general circulation model simulations used in Goyal R., Jucker M., Sen Gupta A., Hendon H. H. and England M. H. (2021). Nature Geoscience. DOI: 10.1038/s41561-021-00811-3
DOI: 10.6084/m9.figshare.21494382
title: Daily mile 2.nvp

description: Daily mile qualitative dataset, and theory of planned behaviour qualitative dataset for analysis
DOI: 10.6084/m9.figshare.21494382.v1
title: Daily mile 2.nvp

description: Daily mile qualitative dataset, and theory of planned behaviour qualitative dataset for analysis
DOI: 10.17632/7sw7kf8nxk.1
title: Response of Southern Hemisphere Western Boundary Current Regions to Future Zonally Symmetric and Asymmetric Atmospheric Changes

description: Data files from ACCESS-OM2 ocean model simulations required to reproduce results in Goyal, R., England, M. H., Jucker, M. and Sen Gupta, A. (2021). Response of Southern Hemisphere Western Boundary Current Regions to Future Zonally Symmetric and Asymmetric Atmospheric Changes. Journal of Geophysical Research : Oceans, 126, e2021JC017858. https://doi.org/10.1029/2021JC017858
DOI: 10.17632/9k45vybm2y.1
title: Constructed Wetlands as Unit Operations in Chemical Process Design: Benefits and Simulation- Module

description: Constructed wetland tool for the unit operation library of CHEMCAD simulation software used in the illustrative example in the paper: "Constructed Wetlands as Unit Operations in Chemical Process Design: Benefits and Simulation," Computers and Chemical Engineering, 2021. 

Readme text for operating the tool is attached within the dataset.
DOI: 10.17632/v7ckyyxv5j.1
title: IN2SIGHT_DES_POLIMI_WP2_PhysicalData_20220425

description: This dataset contains a set of data related to the characterization of the 2-photon polymerized microstructures for the IN2SIGHT project. Mostly, they are supplementary data for publications.
DOI: 10.17632/pcsvfnbv66.1
title: Trust heuristic

description: 5 datasets with codebooks:
1) Pre-test
2) Pilot test (AV domain)
3) Experiment (AV domain)
4) Experiment (nuclear domain)
5) Experiment (airplane domain)
DOI: 10.17632/3ch9xvgksf.1
title: The consequences of quality and quantity of past downward possible self-revisions on the integrity of core present selves and possible future selves

description: SAS Syntax and Data as well as Complete Measures for Studies 1 and 2
DOI: 10.17632/s7cb949r3w.2
title: Mass flows and snow thickness maps at Mount Cleveland from DEMs

description: These data are the results in a paper entitled "Quantifying surface height changes at Mt. Cleveland, Alaska between 2001 and 2020 using satellite photogrammetry" submitted to EPSL in 2021. 

It includes the 2-m resolution surface elevation change and uncertainty maps for the 2001 Cleveland eruption (Fig. 1a in the paper), the 2-m resolution surface elevation change, and uncertainty maps corresponding to the accumulative changes of the following three eruptions: February 3, 2017, to January 20, 2019 eruption, the November 7 to November 15, 2019 eruption, and the June 1, 2020 eruption (Fig. 2a). This also includes the inferred snow thickness map in June 2018 (Fig. 4a). This data set also includes the boundary of the deposit field, the boundary of mass loss, and the boundary of snow. Here we also share the digitized outlines from mass flows in previously published material (e.g., Smith (2005) and an image from the Alaska Volcano Observatory). 

The GeoTIFF files can be viewed in free and open-source software QGIS, in Google Earth, or by Matlab using code https://github.com/ihowat/setsm_postprocessing/blob/master/readGeotiff.m. The shapefiles can be viewed in QGIS. Google Earth may not show some of the shapefiles well. 

Smith, S.J., 2005. Chronologic multisensor assessment for Mount Cleveland, Alaska from 2000 to 2004 focusing on the 2001 eruption (Doctoral dissertation).
DOI: 10.17632/s7cb949r3w.1
title: Mass flows and snow thickness maps at Mount Cleveland from DEMs

description: These data are the results in a paper entitled "Quantifying surface height changes at Mt. Cleveland, Alaska between 2001 and 2020 using satellite photogrammetry" submitted to GRL in 2021. 

It includes the 2-m resolution surface elevation change and uncertainty maps for the 2001 Cleveland eruption (Fig. 1a in the paper), the 2-m resolution surface elevation change, and uncertainty maps corresponding to the accumulative changes of the following three eruptions: February 3, 2017, to January 20, 2019 eruption, the November 7 to November 15, 2019 eruption, and the June 1, 2020 eruption (Fig. 2a). This also includes the inferred snow thickness map in June 2018 (Fig. 4a). This data set also includes the boundary of the deposit field, the boundary of mass loss, and the boundary of snow. Here we also share the digitized outlines from mass flows in previously published material (e.g., Smith (2005) and an image from the Alaska Volcano Observatory). 

The GeoTIFF files can be viewed in free and open-source software QGIS, in Google Earth, or by Matlab using code https://github.com/ihowat/setsm_postprocessing/blob/master/readGeotiff.m. The shapefiles can be viewed in QGIS. Google Earth may not show some of the shapefiles well. 

Smith, S.J., 2005. Chronologic multisensor assessment for Mount Cleveland, Alaska from 2000 to 2004 focusing on the 2001 eruption (Doctoral dissertation).
DOI: 10.17632/s7cb949r3w.3
title: Mass flows maps at Mount Cleveland from DEMs

description: These data are the results in a paper entitled "Quantifying mass flows at Mt. Cleveland, Alaska between 2001 and 2020 using satellite photogrammetry" submitted to JVGR in 2022. 

It includes the 2-m resolution surface elevation change and uncertainty maps for the 2001 Cleveland eruption (Fig. 1a in the paper), the 2-m resolution surface elevation change, and uncertainty maps corresponding to the accumulative changes of the following three eruptions: February 3, 2017, to January 20, 2019 eruption, the November 7 to November 15, 2019 eruption, and the June 1, 2020 eruption (Fig. 3a). This data set also includes the boundary of the deposit field, the boundary of mass loss, and the boundary of snow. Here we also share the digitized outlines from mass flows in previously published material (e.g., Smith (2005) and an image from the Alaska Volcano Observatory). 

The GeoTIFF files can be viewed in free and open-source software QGIS, in Google Earth, or by Matlab using code https://github.com/ihowat/setsm_postprocessing/blob/master/readGeotiff.m. The shapefiles can be viewed in QGIS. Google Earth may not show some of the shapefiles well. 

Smith, S.J., 2005. Chronologic multisensor assessment for Mount Cleveland, Alaska from 2000 to 2004 focusing on the 2001 eruption (Doctoral dissertation).

Dai, C., Howat, I.M., Freymueller, J.T., Lu, Z., Vijay, S., Liljedahl, A.K., Jones, M.K.W., Bergstedt, H. and Lev, E., 2022. Quantifying mass flows at Mt. Cleveland, Alaska between 2001 and 2020 using satellite photogrammetry. Journal of Volcanology and Geothermal Research, p.107614.
DOI: 10.17632/czx6rpgv75.1
title: Nelson et al. Original blots related to Figure 3

description: Nelson et al. Systems level analysis of insulin action in mouse strains provides insight into tissue and pathway specific interactions that drive insulin resistance. Original blots related to Figure 3.
DOI: 10.17632/4p6w99kxg5.1
title: Sample Load-Displacement Data for Elastic Compliance Correction

description: This is Matlab workspace file that contains sample load-displacement data from a steel tensile bar. The purpose of the data is to show the functionality of the "correctcompliance.m" Matlab script by C.B. Finfrock, Colorado School of Mines, 2022. A copy of the matlab script is also contained here. Please cite the author's PhD thesis if you use this script.
DOI: 10.17632/87ngcrv7xw.1
title: A pair of commissural command neurons induces Drosophila wing grooming 

description: Drosophila grooming ethograms. Ethograms can be opened in MATLAB. Different numbers stand for different behaviors, the meanings of numbers are specified in the Readme files.

One video showing spontaneous wing grooming and wing grooming induced by optogenetic activation of wing campaniform sensilla or wPN1.
DOI: 10.17632/p5r92rmjng.1
title: Sample XRD Data for Computation of Retained Austenite Phase Fraction

description: This dataset exists to store supplementary data to a thesis by C.B. Finfrock, Colorado School of Mines, 2022. The two excel files in this dataset are example XRD data, which are intended to provide examples for the use of a Matlab function. The Matlab function "RA_calc.m" is also attached.
DOI: 10.17632/zn64p6r992.1
title: The effect of one hour smartphone gaming on blinking, ocular symptoms and tear film function in school-aged children 

description: Data set for prospective intervention study where 36 children aged 6–15years (20M:25F) played games on a smartphone continuously for one hour. Symptoms (SANDE, IOSS, NRS) and tear film indices (lipid layer thickness, tear secretion and stability) were assessed at baseline and after gaming. Blink rate and interblink interval were measured using a wearable eye tracking headset, at baseline (during conversation) and continuously throughout gaming.
DOI: 10.17632/w2k76w467w.1
title: The Role of Color in the Perception of 3D shape

description: Maxwell Scene Files *.mxs
3D surface geometry *.obj
Lightmap *.hdr
Code used to simulate sub-surface scattering *.m
Psychophysical Data *.xlcx
DOI: 10.17632/t7yvzzy599.1
title: Blood in the water: The value of antitakeover provisions during market shocks

description: Replication files for "Blood in the water: The value of antitakeover provisions during market shocks"
DOI: 10.17632/382gmc8937.1
title: A new zonal wave 3 index for the Southern Hemisphere

description: Zonal wave 3 index time series from Goyal et al., 2022

"A new zonal wave 3 index for the Southern Hemisphere" by Goyal, R., Jucker, M., Sen Gupta, A., England, M.
DOI: https://doi.org/10.1175/JCLI-D-21-0927.1

Python code to calculate the ZW3 index can be found here - https://github.com/rishavgoyal55/NEW-ZONAL-WAVE-3-INDEX.git