cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3047008
title: Austrian Science Fund (FWF) Publication Cost Data 2018

description: The following data set provides information on the publication costs spent by the Austrian Science Fund (FWF) via the programmes Peer-reviewed Publications (https://www.fwf.ac.at/en/research-funding/fwf-programmes/peer-reviewed-publications/) and Stand-Alone Publications (https://www.fwf.ac.at/en/research-funding/fwf-programmes/stand-alone-publications/) in 2018.
description: I would like to thank Benedikt Raimann, Christopher Fabbro, Ünzüle Kirindi-Hentschel and Doris Haslinger for collecting the data and Falk Reckling for his support in designing the data analysis.
DOI: 10.5281/zenodo.3066302
title: Data and Code for replicating the manuscript submitted to World Development

description: Data and Code for replicating the paper "A Data-Driven Approach Improves Food Insecurity Crisis Prediction"
DOI: 10.5281/zenodo.3066303
title: Data and Code for replicating the manuscript submitted to World Development

description: Data and Code for replicating the paper "A Data-Driven Approach Improves Food Insecurity Crisis Prediction"
DOI: 10.25345/c5ss6v
title: MassIVE MSV000083831 - Nicotiana tabacum seed protein analyzed by 12-step MudPIT
title: 2 MudPIT analysis of tobacco seeds.  MGF files made with Bioworks 3.3.1.  Not published.
DOI: 10.5281/zenodo.3060734
title: Companion data of a Systematic Mapping Study of Programming Languages for Data-Intensive HPC Applications

description: As the current existing literature on the topic of HPC is very dispersed, we performed a Systematic Mapping Study (SMS) in the context of the European COST Action cHiPSet. This literature study maps characteristics of various programming languages for data-intensive HPC applications, including category, typical user profiles, effectiveness, and type of articles.

We organised the SMS in two phases. In the first phase, relevant articles are identified employing an automated keyword-based search in eight digital libraries. This lead to an initial sample of 420 papers, which was then narrowed down in a second phase by human inspection of article abstracts, titles and keywords to 152 relevant articles published in the period 2006--2018. The analysis of these articles enabled us to identify 26 programming languages referred to in 33 of relevant articles. This document is the data companion for a paper published elsewhere and presents a detailed list of the selected papers. Besides, the document also presents the form of our questionnaire-based survey that involved 28 HPC experts.
description: This work results from COST Action IC1406 High-Performance Modelling and Simulation for Big Data Applications (cHiPSet), funded by the European Cooperation in Science and Technology.
DOI: 10.17632/8bgjvs5crg.1
title: Data for: E-Cigarette Minimum Legal Sale Age Laws, Traditional Cigarette Use, and Birth Outcomes among Rural, Pregnant Teenagers
DOI: 10.5281/zenodo.3060733
title: Companion data of a Systematic Mapping Study of Programming Languages for Data-Intensive HPC Applications

description: As the current existing literature on the topic of HPC is very dispersed, we performed a Systematic Mapping Study (SMS) in the context of the European COST Action cHiPSet. This literature study maps characteristics of various programming languages for data-intensive HPC applications, including category, typical user profiles, effectiveness, and type of articles. We organised the SMS in two phases. In the first phase, relevant articles are identified employing an automated keyword-based search in eight digital libraries. This lead to an initial sample of 420 papers, which was then narrowed down in a second phase by human inspection of article abstracts, titles and keywords to 152 relevant articles published in the period 2006--2018. The analysis of these articles enabled us to identify 26 programming languages referred to in 33 of relevant articles. This document is the data companion for a paper published elsewhere and presents a detailed list of the selected papers. Besides, the document also presents the form of our questionnaire-based survey. We also include the filled in questionnaires and raw data of the referred survey. To validate the SMS results we conducted a survey (in November 2018) with 28 HPC experts involved in the cHiPSet COST action to which we added, in October 2019, 29 HPC experts which were not involved in that COST action. Participants were recruited through convenience sampling, and contacted directly by the authors. In total, we received 57 filled survey forms.
description: This work results from COST Action IC1406 High-Performance Modelling and Simulation for Big Data Applications (cHiPSet), funded by the European Cooperation in Science and Technology.
DOI: 10.7910/dvn/5gopkz/khrtk1
title: TEM coding framework May 2019.tab

description: Coding framework of qualitative interview responses from participants on reasons for use of Traditional Eye Medicine
DOI: 10.7910/dvn/5gopkz/ygnedw
title: Topic guides for exploring Traditional Eye Medicine Use for treatment of Microbial Keratitis in Uganda.docx

description: Topic guides that were used to probe participants during the qualitative interviews on use of Traditional Eye Medicine for treatment of Microbial Keratitis in Uganda
DOI: 10.25345/c5j92b
title: MassIVE MSV000080610 - MaHPIC Experiment 04: Lipidomics from Macaca mulatta infected with Plasmodium cynomolgi B strain to produce and integrate clinical, hematological, parasitological, and omics measures of acute primary infection and relapses
title: &lt;p&gt;Malaria-naive male rhesus macaques (&lt;i&gt;Macaca mulatta&lt;/i&gt;), approximately three years of age, were inoculated intravenously with salivary gland sporozoites produced and isolated at the Centers for Disease Control and Prevention from multiple &lt;i&gt;Anopheles&lt;/i&gt; species (&lt;i&gt;An. dirus, An. gambiae&lt;/i&gt;, and &lt;i&gt;An. stephensi&lt;/i&gt;) and then profiled for clinical, hematological, parasitological, immunological, functional genomic, lipidomic, proteomic, and metabolomic measurements. The experiment was designed for 100 days, and pre- and post-100 day periods to prepare subjects and administer curative treatments respectively. The anti-malarial drug artemether was subcuratively administered selectively to several subjects during the primary parasitemia to suppress clinical complications and to all animals for curative treatment of blood-stage infections to allow detection of relapses. One subject was euthanized during the 100-day experimental period due to clinical complications. The anti-malarial drugs primaquine and chloroquine were administered to all remaining subjects at the end of the study for curative treatment of the liver and blood-stage infections, respectively. Capillary blood samples were collected daily for the measurement of CBCs, reticulocytes, and parasitemias.  Capillary blood samples were collected every other day to obtain plasma for metabolomic analysis. Venous blood and bone marrow samples were collected at seven time points for functional genomic, proteomic, lipidomic, and immunological analyses. Within the MaHPIC, this project is known as 'Experiment 04'. This dataset was produced by MaHPIC Lipidomics Team led by Dan Ory at Washington University at St. Louis. The experimental design and protocols for this study were approved by the Emory University Institutional Animal Care and Use Committee (IACUC).&lt;/p&gt;
&lt;p&gt;The experimental design and protocols for this study were approved by the Emory University Institutional Animal Care and Use Committee (IACUC).&lt;/p&gt;
&lt;p&gt;
For more information on the MaHPIC, please visit &lt;a href="http://www.systemsbiology.emory.edu/"&gt;http://www.systemsbiology.emory.edu/&lt;/a&gt;.
Within the MaHPIC, these data were collected as part of 'Experiment 03' ('E04'). To access other publicly available results from 'E04' and other MaHPIC Experiments, including clinical results (specifics on drugs administered, diet, and veterinary interventions), and other omics, visit &lt;a href="http://plasmodb.org/plasmo/mahpic.jsp"&gt;http://plasmodb.org/plasmo/mahpic.jsp&lt;/a&gt;.  This page will be updated as datasets are released to the public."
&lt;/p&gt;
DOI: 10.25345/c5p047
title: MassIVE MSV000080563 - MaHPIC E03 Lipidomics
title: MaHPIC Experiment 03 is a Macaca mulatta infection experiment with Plasmodium coatneyi. Five Non-Human Primates (NHPs) (M. mulatta) were infected with P. coatneyi hackeri. The NHPs were given sub-curative treatment with Artemether during the experiment. After the 100-day experimental period, NHPs were treated with blood-stage curative doses of Artemether.

This dataset consists of relative quantification results of targeted lipid species, raw and intermediate data, related metadata, and supporting documents from the MaHPIC Lipidomics Team at Washington University in St. Louis for Experiment 03.
DOI: 10.25345/c51932
title: MassIVE MSV000081156 - E30
title: &lt;p&gt;Telemetry devices (DSI, model L21) with blood pressure sensors and ECG leads were surgically implanted in two malaria-naive male rhesus macaques (&lt;i&gt;Macaca mulatta&lt;/i&gt;), approximately three years of age.  After a resting period of two weeks, physiological data that include activity, temperature, ECG, and blood pressure were continuously collected.  Two weeks after activation of the telemetry implant, the macaques were inoculated intravenously with cryopreserved salivary gland sporozoites. The cryopreserved batch of P. knowlesi sporozoites were produced, isolated and cryopreserved at the Centers for Disease Control and Prevention from multiple Anopheles species (&lt;i&gt;An. dirus&lt;/i&gt;, &lt;i&gt;An. gambiae&lt;/i&gt;, and &lt;i&gt;An. stephensi&lt;/i&gt;) and their infectivity previously validated in rhesus.  After experimental infection, the macaques were profiled for clinical, hematological, parasitological, immunological, functional genomic, lipidomic, proteomic, metabolomic, telemetric and histopathological measurements. The experiment was designed for terminal necropsies on days 11 (RKy15) or 20 (Red16).  The anti-malarial drug artemether was subcuratively administered selectively to one subject (REd16) during the primary parasitemia to suppress clinical complications. Capillary blood samples were collected daily for the measurement of CBCs, reticulocytes, and parasitemias. Capillary blood samples were collected every other day to obtain plasma for metabolomic analysis. Venous blood and bone marrow samples were collected at five timepoints for functional genomic, proteomic, lipidomic, and immunological analyses. Physiological data were continuously captured via telemetry.  Within the MaHPIC, this project is known as 'Experiment 30'.&lt;/p&gt;
&lt;p&gt; This dataset was produced by: The MaHPIC Consortium, Monica Cabrera, Jeremy D. DeBarry, Mary G. Galinski, Jay Humphrey, Ebru Karpuzoglu, Jessica C. Kissinger, Regina Joice, Esmeralda Meyer, Alberto Moreno
, Mustafa Nural, Dan Ory, Suman Pakala, and Xuntian Jiang.  The experimental design and protocols for this study were approved by the Emory University Institutional Animal Care and Use Committee (IACUC).&lt;/p&gt;
&lt;p&gt;For more information on the MaHPIC, please visit &lt;a href="http://www.systemsbiology.emory.edu/"&gt;http://www.systemsbiology.emory.edu/&lt;/a&gt;.
To access other publicly available results from 'E30' and other MaHPIC Experiments, including clinical results (specifics on drugs administered, diet, and veterinary interventions), and other omics, visit &lt;a href="http://plasmodb.org/plasmo/mahpic.jsp"&gt;http://plasmodb.org/plasmo/mahpic.jsp&lt;/a&gt;.  This page will be updated as datasets are released to the public.&lt;/p&gt;
DOI: 10.7910/dvn/4wk5cx
title: CCES 2009

description: :unav
DOI: 10.5281/zenodo.3066318
title: Supplementary tables S1-S5. Comparison of two different host plant genera responding to grapevine leafroll-associated virus 3 infection

description: Grapevine leafroll-associated virus 3 (GLRaV-3) is one of the most important viruses of grapevine but, despite this, there remain several gaps in our understanding of its biology. Because of its narrow host range -limited to <em>Vitis</em> species - and because the virus is restricted to the phloem, most GLRaV-3 research has concentrated on epidemiology and the development of detection assays. The recent discovery that GLRaV-3 can infect <em>Nicotiana</em> <em>benthamiana, </em>a plant model organism, makes new opportunities available for research in this field. We used RNA-seq to compare both <em>V. vinifera </em>and <em>N. benthamiana</em> host responses to GLRaV-3 infection. This is the first analysis of gene expression profiles beyond <em>Vitis </em>to mealybug-transmitted GLRaV-3.
DOI: 10.5281/zenodo.3066319
title: Supplementary tables S1-S4. Comparison of two different host plant genera responding to grapevine leafroll-associated virus 3 infection

description: Grapevine leafroll-associated virus 3 (GLRaV-3) is one of the most important viruses of grapevine but, despite this, there remain several gaps in our understanding of its biology. Because of its narrow host range -limited to <em>Vitis</em> species - and because the virus is restricted to the phloem, most GLRaV-3 research has concentrated on epidemiology and the development of detection assays. The recent discovery that GLRaV-3 can infect <em>Nicotiana</em> <em>benthamiana, </em>a plant model organism, makes new opportunities available for research in this field. We used RNA-seq to compare both <em>V. vinifera </em>and <em>N. benthamiana</em> host responses to GLRaV-3 infection. This is the first analysis of gene expression profiles beyond <em>Vitis </em>to mealybug-transmitted GLRaV-3.
DOI: 10.17632/4twz8zp547.1
title: Data for: Visually deficient working conditions and reduced work performance in office workers: Is it mediated by visual well-being and health?

description: Data used to generate the results which are outlined in article.
DOI: 10.7910/dvn/s8vo2m
title: CCES, George Washington University, 2006

description: :unav
DOI: 10.5281/zenodo.3066343
title: fuNTRp training dataset

description: deep mutational scanning training dataset for fuNTRp (DOI:10.5281/zenodo.3020352) model
DOI: 10.5281/zenodo.3066344
title: fuNTRp training dataset

description: deep mutational scanning training dataset for fuNTRp (DOI:10.5281/zenodo.3020352) model
DOI: 10.7910/dvn/ixxfnr
title: CCES, Stanford, 2006

description: :unav
DOI: 10.7910/dvn/zrub7n
title: CCES, Reed College, 2006

description: :unav
DOI: 10.7910/dvn/07lagv
title: CCES, Duke 2, 2008

description: :unav
DOI: 10.7910/dvn/5gopkz/dlmx16
title: Quantitative questionnaire on use of Traditional Eye Medicine.docx

description: Questionnaire used in the quantitative interviews with all patients with Microbial Keratitis about their history of use of Traditional Eye Medicine
DOI: 10.7910/dvn/x4gamg
title: CCES, Duke, 2008

description: :unav
DOI: 10.7910/dvn/5cofhi
title: CCES, GW, 2008

description: :unav
DOI: 10.26304/361-u1476a-pwave-l
title: Expedition 361 Hole U1476A P-wave velocity logger (whole round) data file

description: Hole U1476A PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1476A
DOI: 10.26304/361-u1476a-rgb
title: Expedition 361 Hole U1476A RGB channels (calculated from core photos) data file

description: Hole U1476A RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1476A
DOI: 10.26304/361-u1476a-rsc
title: Expedition 361 Hole U1476A Color reflectance data file

description: Hole U1476A RSC - Color reflectance for Expedition 361 Hole U1476A
DOI: 10.26304/361-u1476c-pwave-l
title: Expedition 361 Hole U1476C P-wave velocity logger (whole round) data file

description: Hole U1476C PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1476C
DOI: 10.26304/361-u1476c-rgb
title: Expedition 361 Hole U1476C RGB channels (calculated from core photos) data file

description: Hole U1476C RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1476C
DOI: 10.26304/361-u1476d-pwave-l
title: Expedition 361 Hole U1476D P-wave velocity logger (whole round) data file

description: Hole U1476D PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1476D
DOI: 10.26304/361-u1476d-rgb
title: Expedition 361 Hole U1476D RGB channels (calculated from core photos) data file

description: Hole U1476D RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1476D
DOI: 10.26304/361-u1476d-rsc
title: Expedition 361 Hole U1476D Color reflectance data file

description: Hole U1476D RSC - Color reflectance for Expedition 361 Hole U1476D
DOI: 10.5281/zenodo.3065340
title: A localization transition underlies the mode-coupling crossover of glasses

description: This dataset is associated to "A localization transition underlies the mode-coupling crossover of glasses" by D. Coslovich, A. Ninarello and L. Berthier [https://arxiv.org/abs/1811.03171].

It includes post-processed data and workflow to reproduce the analysis and the figures of the article and of the supplemental information.

The easiest way to reproduce the analysis and figures, and then check the results, is to use the make script:

<pre><code class="language-bash">./make all</code></pre>

Alternatively, the analysis and figures can be reproduced in any of the following ways


	following the workflow described in the org-mode project file project.org
	using the individual bash and gnuplot scripts in src/ and plots/


Folders and files description:


	analysis/: post-processed data
	src/: bash, python and gnuplot scripts needed to reproduce the analysis
	plots/: eps figures that appear in the paper and supplemental information and associated gnuplot scripts
	make: convenience script to setup the python environment, analyze the data and reproduce the figures
	project.org: org-mode project file with workflow and supplemental information
	project.pdf: pdf version of the org-mode project file
	project.bib: bibtex bibliography associated to the project


Dependencies:


	numpy (1.16.3)
	argh (0.26.2)
	atooms (1.9.1)
	gnuplot (5.0.0)


The analysis scripts have been tested with python versions 2.7 and 3.5. The org-mode project file has been tested with org version 9.1.13.

Note: this dataset does not contain (at least yet) the particle configurations associated to saddle points, only the post-processed files containing selected properties of their normal modes.

Changelog:


	1.0.0
	
		initial submission
	
	
	1.1.0
	
		add "all" target to ./make
		fix ./make check
		improve setup description
DOI: 10.26304/361-u1476b-pwave-l
title: Expedition 361 Hole U1476B P-wave velocity logger (whole round) data file

description: Hole U1476B PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1476B
DOI: 10.26304/361-u1476b-rgb
title: Expedition 361 Hole U1476B RGB channels (calculated from core photos) data file

description: Hole U1476B RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1476B
DOI: 10.26304/361-u1476b-rsc
title: Expedition 361 Hole U1476B Color reflectance data file

description: Hole U1476B RSC - Color reflectance for Expedition 361 Hole U1476B
DOI: 10.26304/361-u1476c-rsc
title: Expedition 361 Hole U1476C Color reflectance data file

description: Hole U1476C RSC - Color reflectance for Expedition 361 Hole U1476C
DOI: 10.26304/361-u1476e-pwave-l
title: Expedition 361 Hole U1476E P-wave velocity logger (whole round) data file

description: Hole U1476E PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1476E
DOI: 10.26304/361-u1476e-rgb
title: Expedition 361 Hole U1476E RGB channels (calculated from core photos) data file

description: Hole U1476E RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1476E
DOI: 10.26304/361-u1476e-rsc
title: Expedition 361 Hole U1476E Color reflectance data file

description: Hole U1476E RSC - Color reflectance for Expedition 361 Hole U1476E
DOI: 10.26304/361-u1478c-rgb
title: Expedition 361 Hole U1478C RGB channels (calculated from core photos) data file

description: Hole U1478C RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1478C
DOI: 10.26304/361-u1478c-rsc
title: Expedition 361 Hole U1478C Color reflectance data file

description: Hole U1478C RSC - Color reflectance for Expedition 361 Hole U1478C
DOI: 10.26304/361-u1478a-pwave-l
title: Expedition 361 Hole U1478A P-wave velocity logger (whole round) data file

description: Hole U1478A PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1478A
DOI: 10.26304/361-u1478a-rgb
title: Expedition 361 Hole U1478A RGB channels (calculated from core photos) data file

description: Hole U1478A RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1478A
DOI: 10.26304/361-u1478a-rsc
title: Expedition 361 Hole U1478A Color reflectance data file

description: Hole U1478A RSC - Color reflectance for Expedition 361 Hole U1478A
DOI: 10.26304/361-u1478b-pwave-l
title: Expedition 361 Hole U1478B P-wave velocity logger (whole round) data file

description: Hole U1478B PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1478B
DOI: 10.26304/361-u1478b-rsc
title: Expedition 361 Hole U1478B Color reflectance data file

description: Hole U1478B RSC - Color reflectance for Expedition 361 Hole U1478B
DOI: 10.26304/361-u1478c-pwave-l
title: Expedition 361 Hole U1478C P-wave velocity logger (whole round) data file

description: Hole U1478C PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1478C
DOI: 10.26304/361-u1478d-pwave-l
title: Expedition 361 Hole U1478D P-wave velocity logger (whole round) data file

description: Hole U1478D PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1478D
DOI: 10.26304/361-u1478d-rgb
title: Expedition 361 Hole U1478D RGB channels (calculated from core photos) data file

description: Hole U1478D RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1478D
DOI: 10.26304/361-u1478d-rsc
title: Expedition 361 Hole U1478D Color reflectance data file

description: Hole U1478D RSC - Color reflectance for Expedition 361 Hole U1478D
DOI: 10.26304/361-u1475b-pwave-l
title: Expedition 361 Hole U1475B P-wave velocity logger (whole round) data file

description: Hole U1475B PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1475B
DOI: 10.26304/361-u1475b-rgb
title: Expedition 361 Hole U1475B RGB channels (calculated from core photos) data file

description: Hole U1475B RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1475B
DOI: 10.26304/361-u1475b-rsc
title: Expedition 361 Hole U1475B Color reflectance data file

description: Hole U1475B RSC - Color reflectance for Expedition 361 Hole U1475B
DOI: 10.26304/361-u1475e-pwave-l
title: Expedition 361 Hole U1475E P-wave velocity logger (whole round) data file

description: Hole U1475E PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1475E
DOI: 10.26304/361-u1475e-rgb
title: Expedition 361 Hole U1475E RGB channels (calculated from core photos) data file

description: Hole U1475E RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1475E
DOI: 10.26304/361-u1475e-rsc
title: Expedition 361 Hole U1475E Color reflectance data file

description: Hole U1475E RSC - Color reflectance for Expedition 361 Hole U1475E
DOI: 10.26304/361-u1475f-pwave-l
title: Expedition 361 Hole U1475F P-wave velocity logger (whole round) data file

description: Hole U1475F PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1475F
DOI: 10.26304/361-u1475f-rsc
title: Expedition 361 Hole U1475F Color reflectance data file

description: Hole U1475F RSC - Color reflectance for Expedition 361 Hole U1475F
DOI: 10.26304/361-u1478b-rgb
title: Expedition 361 Hole U1478B RGB channels (calculated from core photos) data file

description: Hole U1478B RGB - RGB channels (calculated from core photos) for Expedition 361 Hole U1478B
DOI: 10.26304/361-u1475a-pwave-l
title: Expedition 361 Hole U1475A P-wave velocity logger (whole round) data file

description: Hole U1475A PWAVE-L - P-wave velocity logger (whole round) for Expedition 361 Hole U1475A