cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25006931
title: The increasing unaffordability of OA fees for Global South countries

description: The public budget for science funding is constantly under pressure around the globe. However, the scientific production remains very uneven, with clear consequences for how knowledge is produced and circulated. Here, we calculated the publication costs for countries, estimating how many can afford Article Processing Charges (APC) based on their public investment on science. Although the US has the greatest number of publications, China has the highest growth rate, and Japan the highest value invested per publication. Importantly, only 21 % of the countries can afford APCs. The difference in global investment in R&D and the unpractical fees charged by journals increase inequality in science, pushing poor countries to publish in lower-impact and predatory journals.
DOI: 10.5066/p990rjt8
title: Greenhouse gas fluxes and dissolved greenhouse gas concentrations from wetland soil microcosms treated with herbicides

description: This data release presents data from a laboratory microcosm study examining the potential effects of herbicide application on the production and flux of greenhouse gases from wetland soils. Wetland soils were placed into glass mason jars and covered with water. Microcosms were treated with varying concentrations (none, low, medium, high) and combinations of the herbicides glyphosate and 2,4-D. Following herbicide application greenhouse gas fluxes were measured and concentrations of dissolved greenhouse gases were determined periodically over a 21-day period.
DOI: 10.18120/8yqc-z875
title: UH3
DOI: 10.25345/c5dv1d01p
title: MassIVE MSV000093875 - An XIC-centric approach for improved identification and quantification in proteomic data analyses
title: An XIC-centric approach for improved identification and quantification in proteomic data analyses
DOI: 10.5255/ukda-sn-852418
title: Marriage migration and integration - Interview data

description: This data collection consists of semi-structured interviews designed to cover processes in five domains of integration (social, cultural, structural, civic and political, identity) with sections on life before and after marriage. The data deposited consists of the transcripts of the recorded semi-structured interviews with British Pakistani Muslim and British Indian Sikh spouses, and migrant Pakistani Muslim and migrant Indian Sikh spouses. 
This research explored the relationships between marriage migration and integration, focusing on the two largest UK ethnic groups involved in transnational marriages with partners from their parents’ or grandparents’ countries of origin: British Pakistani Muslims and British Indian Sikhs.
DOI: 10.5281/zenodo.10519561
title: Impact of hydrostatic pressure, nonstoichiometry, and doping on trimeron lattice excitations in magnetite during axis switching

description: Data descreption: The data sets for original figures in the article entitled ‘Impact of hydrostatic pressure, nonstoichiometry, and doping on trimeron lattice excitations in magnetite during axis switching' published in Physical Review B 108, 245148 (2023). The name of each xls file corresponds to the figure number in the published article. The files can be opened using the Excel program. If there are sub-figures, the data of each sub-figure is stored in separate sheets within one xls file.
description: Funding and acknowledgements: 

The work was supported by the National Science Centre, Poland, Grant No. OPUS: 2021/41/B/ST3/03454; the Polish National Agency for Academic Exchange under “Polish Returns 2019” Programme No. PPN/PPO/2019/1/00014; and the subsidy of the Ministry of Science and Higher Education of Poland. M.A.G., K.P., I.B., Z.K., and W.T. acknowledge the support from the “Excellence Initiative–Research University” program for AGH University of Krakow. I.B. acknowledges support from the Swiss Confederation through the Government Excellence Scholarship.
DOI: 10.5281/zenodo.10519562
title: Impact of hydrostatic pressure, nonstoichiometry, and doping on trimeron lattice excitations in magnetite during axis switching

description: Data descreption: The data sets for original figures in the article entitled ‘Impact of hydrostatic pressure, nonstoichiometry, and doping on trimeron lattice excitations in magnetite during axis switching' published in Physical Review B 108, 245148 (2023). The name of each xls file corresponds to the figure number in the published article. The files can be opened using the Excel program. If there are sub-figures, the data of each sub-figure is stored in separate sheets within one xls file.
description: Funding and acknowledgements: 

The work was supported by the National Science Centre, Poland, Grant No. OPUS: 2021/41/B/ST3/03454; the Polish National Agency for Academic Exchange under “Polish Returns 2019” Programme No. PPN/PPO/2019/1/00014; and the subsidy of the Ministry of Science and Higher Education of Poland. M.A.G., K.P., I.B., Z.K., and W.T. acknowledge the support from the “Excellence Initiative–Research University” program for AGH University of Krakow. I.B. acknowledges support from the Swiss Confederation through the Government Excellence Scholarship.
DOI: 10.6084/m9.figshare.25007084
title: Characteristics of the workforce of the core and periphery of the digital economy declared by employers when describing vacancies

description: Characteristics of the workforce of the core and periphery of the digital economy declared by employers when describing vacancies
DOI: 10.6084/m9.figshare.25007084.v1
title: Characteristics of the workforce of the core and periphery of the digital economy declared by employers when describing vacancies

description: Characteristics of the workforce of the core and periphery of the digital economy declared by employers when describing vacancies
DOI: 10.6084/m9.figshare.25003790.v1
title: Correlation Matrix.xlsx

description: Correlation Matrix of Simulation and Debriefing Pilot Study
DOI: 10.6084/m9.figshare.19148915
title: SS02

description:  We examined memory and fMRI activity for photos of indoor and outdoor scenes across four time periods to examine these neural changes more carefully. Participants (N = 21) studied scenes 1 hour, 1 day, 1 week, or 1 month before scanning. During scanning, participants viewed scenes, made old/new recognition memory judgments, and gave confidence ratings.
DOI: 10.6084/m9.figshare.19148915.v1
title: SS02

description:  We examined memory and fMRI activity for photos of indoor and outdoor scenes across four time periods to examine these neural changes more carefully. Participants (N = 21) studied scenes 1 hour, 1 day, 1 week, or 1 month before scanning. During scanning, participants viewed scenes, made old/new recognition memory judgments, and gave confidence ratings.
DOI: 10.13012/b2idb-5495131_v1
title: API analysis of the Minrva mobile app (May 2015 – December 2015)

description: Files in this dataset represent an investigation into use of the Library mobile app Minrva during the months of May 2015 through December 2015. During this time interval 45,975 API hits were recorded by the Minrva web server. The dataset included herein is an analysis of the following: 1) a delineation of API hits to mobile app modules use in the Minrva app by month, 2) a general analysis of Minrva app downloads to module use, and 3) the annotated data file providing associations from API hits to specific modules used, organized by month (May 2015 – December 2015).
DOI: 10.5281/zenodo.8312889
title: Reproduction package for paper "Do software defects smell?"

description: Reproduction package for the article
DOI: 10.5517/ccdc.csd.cc2dzbh7
title: CCDC 2233689: Experimental Crystal Structure Determination

description: Related Article: Sayan Atta, Amit Mandal, Rahul Saha, Amit Majumdar|2024|Dalton Trans.|53|949|doi:10.1039/D3DT03768A
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc25p6rv
title: CCDC 2016387: Experimental Crystal Structure Determination

description: Related Article: Fangjun Zhang, Keyu Han, Jiamin Cai, Zihao Ye, Jie Zhang, Xigeng Zhou, Zhiming Li|2023|Inorg.Chem.Front.|11|478|doi:10.1039/D3QI02007J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2dzw9l
title: CCDC 2234210: Experimental Crystal Structure Determination

description: Related Article: Xiaomei Jiang, Tiantian Li, Qingzheng Kong, Ying Sun, Xutang Tao|2023|Inorg.Chem.Front.|11|451|doi:10.1039/D3QI01648J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc25p6mq
title: CCDC 2016383: Experimental Crystal Structure Determination

description: Related Article: Fangjun Zhang, Keyu Han, Jiamin Cai, Zihao Ye, Jie Zhang, Xigeng Zhou, Zhiming Li|2023|Inorg.Chem.Front.|11|478|doi:10.1039/D3QI02007J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2f3dnm
title: CCDC 2237600: Experimental Crystal Structure Determination

description: Related Article: Marko Antonijević, Edina Avdović, Dušica Simijonović, Žiko Milanović, Milan Žižić, Zoran Marković|2024|Sci. Total Environ.|912|169307|doi:10.1016/j.scitotenv.2023.169307
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2f57jd
title: CCDC 2239363: Experimental Crystal Structure Determination

description: Related Article: Farshid Hajibabaei, Samaneh Sanei Movafagh, Sadegh Salehzadeh, Robert William Gable|2024|Dalton Trans.|53|1066|doi:10.1039/D3DT03281G
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2f8866
title: CCDC 2242267: Experimental Crystal Structure Determination

description: Related Article: Anupam Singh, Kunal Shiv, Ranjeet Singh, M. K. Bharty, Partha Pratim Manna, Lal Bahadur Prasad|2024|Dalton Trans.|53|1196|doi:10.1039/D3DT03724J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.25003790
title: Correlation Matrix.xlsx

description: Correlation Matrix of Simulation and Debriefing Pilot Study
DOI: 10.6084/m9.figshare.25003790.v2
title: Correlation Matrix.xlsx

description: Correlation Matrix of Simulation and Debriefing Pilot Study
DOI: 10.6084/m9.figshare.25003790.v3
title: Correlation Matrix.xlsx

description: Correlation Matrix of Simulation and Debriefing Pilot Study
DOI: 10.5281/zenodo.10519879
title: Motivation Research Using Labeling Functions - replication

description: Motivation is an important factor in software development.However, it is a subjective concept that is hard to quantify and study empirically.Therefore, it seems that the wealth of data available about real software development projects in repositories such as GitHub cannot be used to study motivation.We present a new methodology to overcome this difficulty, based on the use of labeling functions.A labeling function is a validated heuristic that need only be better than a guess, computable on a dataset.We define four labeling functions for motivation, for example working in diverse hours of the day, and show that they indeed correlate with motivation.We then apply them to more than 150 thousand developers working on GitHub projects.This enables us to characterize and compare the behaviors of developers who are motivated or less so.The results indicate that the effect of motivation is indeed large, and allow us to build a model to predict developer retention in a project.
DOI: 10.5281/zenodo.10519880
title: Motivation Research Using Labeling Functions - replication

description: Motivation is an important factor in software development.However, it is a subjective concept that is hard to quantify and study empirically.Therefore, it seems that the wealth of data available about real software development projects in repositories such as GitHub cannot be used to study motivation.We present a new methodology to overcome this difficulty, based on the use of labeling functions.A labeling function is a validated heuristic that need only be better than a guess, computable on a dataset.We define four labeling functions for motivation, for example working in diverse hours of the day, and show that they indeed correlate with motivation.We then apply them to more than 150 thousand developers working on GitHub projects.This enables us to characterize and compare the behaviors of developers who are motivated or less so.The results indicate that the effect of motivation is indeed large, and allow us to build a model to predict developer retention in a project.
DOI: 10.5281/zenodo.10519851
title: Mash Sketch of RefSeq Bacterial Representative Genomes v221

description: This was created to get a new mash reference that was current. The script to create this uses ncbi datasets and mash (https://github.com/UPHL-BioNGS/Grandeur/blob/main/bin/new_mash_ref.sh)This was created on January 14, 2024, and is RefSeq v221```bash

#/bin/bashout=mash_dbmkdir $out

cd $out

datasets summary genome taxon bacteria --reference --as-json-lines | \

dataformat tsv genome --fields accession,assminfo-refseq-category,organism-name --elide-header | \

grep representative | \

tee representative_genomes.txt | \

cut -f 1 > genome_ids.txt

echo "$(date): Downloading genomes for ids"

datasets download genome accession --inputfile genome_ids.txt --filename rep-genomes.zip

echo "$(date): Decompressing zip file"

unzip rep-genomes.zip

echo "$(date): Creating file for mash"

cat ncbi_dataset/data/*/*.fna | sed 's/ /_/g' | sed 's/,//g' > rep-genomes.fasta

echo "$(date): Skeching rep-genomes.fasta"

mash sketch -i -p 20 rep-genomes.fasta -o rep-genomes

############################################################

echo "$(date): File preparation is complete"

ls -alh rep-genomes.fasta

ls -alh rep-genomes.msh```
DOI: 10.5281/zenodo.10519852
title: Mash Sketch of RefSeq Bacterial Representative Genomes v221

description: This was created to get a new mash reference that was current. The script to create this uses ncbi datasets and mash (https://github.com/UPHL-BioNGS/Grandeur/blob/main/bin/new_mash_ref.sh)This was created on January 14, 2024, and is RefSeq v221```bash

#/bin/bashout=mash_dbmkdir $out

cd $out

datasets summary genome taxon bacteria --reference --as-json-lines | \

dataformat tsv genome --fields accession,assminfo-refseq-category,organism-name --elide-header | \

grep representative | \

tee representative_genomes.txt | \

cut -f 1 > genome_ids.txt

echo "$(date): Downloading genomes for ids"

datasets download genome accession --inputfile genome_ids.txt --filename rep-genomes.zip

echo "$(date): Decompressing zip file"

unzip rep-genomes.zip

echo "$(date): Creating file for mash"

cat ncbi_dataset/data/*/*.fna | sed 's/ /_/g' | sed 's/,//g' > rep-genomes.fasta

echo "$(date): Skeching rep-genomes.fasta"

mash sketch -i -p 20 rep-genomes.fasta -o rep-genomes

############################################################

echo "$(date): File preparation is complete"

ls -alh rep-genomes.fasta

ls -alh rep-genomes.msh```
DOI: 10.25934/pr00008729
title: Time to Initiation of Symptomatic Treatment in untreated Parkinson Disease

description: Parkinson disease (PD) is a progressive degenerative disease that affects the brain. It is the second most common after Alzheimer's disease, and it affects approximately 1% of individuals over the age of 60, or between 500,000 and 1 milion Americans. There is no cure or treatment to delay progression in PD. The development of treatments relies on accurately tracking its natural progression. Because progression of symptoms in PD is generally slow, most individuals with this condition will not need symptomatic treatment right from the beginning after they are diagnosed. The start of symptomatic treatment represents a "milestone" for an individual with PD, because it means that their symptoms have progressed to a certain level of disability requiring symptomatic relief. All patients with PD eventually start symptomatic treatment, which makes this clinical milestone of treatment initiation an important measure of disease progression, frequently used in clinical trials. Understanding what best predicts this meaningful disease progression milestone is important in the design of clinical trials because most of them enroll individuals with PD that have never been on medications for PD. The aim of this analysis is to find individual and disease characteristics that best predict the time to the initiation of symptomatic treatment in individuals with PD previously untreated.
DOI: 10.6084/m9.figshare.25007108
title: <b> </b><b> Bayesian Modeling</b>

description: <b>ABSTRACT</b><b>OBJECTIVE</b>Despite significant advancements in understanding risk factors and treatment strategies, ischemic heart disease (IHD) remains the leading cause of mortality worldwide, particularly within specific regions in Brazil where the disease is a burden. Therefore, the aim of this study was to estimate the risk of hospitalization and mortality from IHD in Paraná State, Brazil, using spatial analysis.<b>METHODS</b>This is an ecological study based on secondary and historical mortality data obtained from the Brazilian Mortality Information System and Hospitalization Information System during 2010-2021 period, stratified by Health Regions in Paraná State. To assess the spatial patterns of the disease and identify relative risk (RR) areas, we constructed a risk model by Bayesian inference using the R-INLA and SpatialEpi packages in R software. <b>RESULTS</b>A total of 333,229 hospitalizations and 73,221 deaths with elevated RR of 27.42 of hospitalizations and 15.68 of mortality for IHD in small-sized municipalities. Hospitalization and death rates were higher in men and whites aged 40-59. Regions 2 and 6 had the highest hospitalization risks, while all other regions presented RR of death &gt;1. The RR median of hospitalizations remained constant, but mortality median increased over time.<b>CONCLUSION </b>Areas with increased risk of hospitalization and mortality of IHD was found between small and medium municipalities in Parana State, Brazil. These results suggested that there is a deficit of care in health attention for IHD cases in small and medium-sized municipalities, which can be justified by a low distribution of healthcare resources.<br>
DOI: 10.6084/m9.figshare.25007108.v1
title: <b> </b><b> Bayesian Modeling</b>

description: <b>ABSTRACT</b><b>OBJECTIVE</b>Despite significant advancements in understanding risk factors and treatment strategies, ischemic heart disease (IHD) remains the leading cause of mortality worldwide, particularly within specific regions in Brazil where the disease is a burden. Therefore, the aim of this study was to estimate the risk of hospitalization and mortality from IHD in Paraná State, Brazil, using spatial analysis.<b>METHODS</b>This is an ecological study based on secondary and historical mortality data obtained from the Brazilian Mortality Information System and Hospitalization Information System during 2010-2021 period, stratified by Health Regions in Paraná State. To assess the spatial patterns of the disease and identify relative risk (RR) areas, we constructed a risk model by Bayesian inference using the R-INLA and SpatialEpi packages in R software. <b>RESULTS</b>A total of 333,229 hospitalizations and 73,221 deaths with elevated RR of 27.42 of hospitalizations and 15.68 of mortality for IHD in small-sized municipalities. Hospitalization and death rates were higher in men and whites aged 40-59. Regions 2 and 6 had the highest hospitalization risks, while all other regions presented RR of death &gt;1. The RR median of hospitalizations remained constant, but mortality median increased over time.<b>CONCLUSION </b>Areas with increased risk of hospitalization and mortality of IHD was found between small and medium municipalities in Parana State, Brazil. These results suggested that there is a deficit of care in health attention for IHD cases in small and medium-sized municipalities, which can be justified by a low distribution of healthcare resources.<br>
DOI: 10.5281/zenodo.10519853
title: The Junggar Block rotations for the last 50 Myr: paleomagnetic reconstruction

description: Supplementary Tables 2 and 3: Individual sample thermal demagnetization results for the Burqin section (sheet 2) and Tieersihabahe section (sheet 3).
DOI: 10.5281/zenodo.10519854
title: The Junggar Block rotations for the last 50 Myr: paleomagnetic reconstruction

description: Supplementary Tables 2 and 3: Individual sample thermal demagnetization results for the Burqin section (sheet 2) and Tieersihabahe section (sheet 3).
DOI: 10.6084/m9.figshare.23055821
title: de Zwaan_2024_Global Change Biology_data

description: Cleaned and organized data required to reproduce the analysis for the manuscript:<br>de Zwaan, D.R., Huang, A., Fox, C.H., Bradley, D.W., & Ethier, D.M. (2024). Occupancy trends of overwintering coastal waterbird communities reveal guild-specific patterns of redistribution and shifting reliance on existing Protected Areas. Global Change Biology.<br>Includes two datasets: 1) 'count_data' - cleaned version of the raw Coastal Waterbird Survey data with columns needed to model effort and detection probability, and 2) 'environment_data' - surface water and coast structure variables to fit occupancy models.<br>Raw count data were accessed from NatureCounts: https://www.birdscanada.org/naturecounts/default/main.jsp<br>For sources and descriptions of environmental data, see manuscript and supplementary appendix.
DOI: 10.4231/r78w3bbv
title: Farmers' Climate Risk Perceptions and Use of Climate Information: 2016 Survey Data

description: Midwestern farmers were surveyed in late 2016 to measure their perceptions and attitudes about weather and climate, their awareness of the U2U project, and their use of U2U tools.