cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3179329
title: Kenya Long-term Exclosure Experiment (KLEE) Acacia drepanolobium density and size survey

description: <i>A. drepanolobium</i> makes up approximately 97% of the woody cover in this system. This Excel file contains <i>Acacia drepanolobium</i> density and size distributions in each of the of the 18 KLEE plots. Surveys were conducted in 2011. Trees were surveyed along three 4 m x 100 m transects within each KLEE plot. Each row represents data from one transect. Columns indicate experimental block, plot, number of trees in each of five size classes, and total number of trees for each transect. Additional data for non<i>-drepanolobium</i> woody species, as well as a newly updated 2015 tree survey, are available upon request.
DOI: 10.6084/m9.figshare.3179332.v1
title: Kenya Long-term Exclosure Experiment (KLEE) dung count data

description: Starting in 2006, we have conducted biennial (roughly March and October) dung surveys along six-4 m x100 m permanent transects within each of the 18 KLEE plots and three control transects outside of the KLEE plots. This Excel worksheet features dung count data for each KLEE plot. Count data is broken down by herbivore species. To avoid recounting the same dung piles during subsequent surveys, we crush all recorded dung piles during each session. For animals that defecate in middens (such as steinbuck and Grant's gazelle), we used the number of dung pellets and differences in shape and color to estimate the number of separate defecation events. Dung piles for all major herbivore species could be positively identified to species in the field, with two exceptions. The dung of cattle and buffalo could not be distinguished, and we lumped them. The dung of plains and Grevy's zebras also could not be distinguished from each other; hence we grouped them as “zebra”. However, plains zebra far outnumber Grevy’s, so effectively we consider these to be plains zebra dung.
DOI: 10.6084/m9.figshare.3179320
title: Kenya Long-term Exclosure Experiment (KLEE) Rainfall 2003-2016

description: Rainfall measurements were recorded from manual rain gauges located along the fence lines of the Kenya Long-term Exclosure Experiment (KLEE). There are a total of three rain gauges. Each KLEE block has one manual rain gauge. Exact GPS locations are located in the “GPS locations” sheet of this document. Rainfall dates are recorded and gauge measurements are taken as soon as possible after rainfall events. This Excel worksheet has rainfall data from each of the three replicate KLEE blocks since 2003. There are separate worksheets for daily rainfall, monthly rainfall (since 1996), and yearly rainfall (since 1996). Additional monthly and yearly rainfall data since 1996 are available upon request. Measurements are taken in millimeters. Columns North, Central, and South refer to gauge readings taken in the north, central, and south blocks of KLEE. <br>
DOI: 10.6084/m9.figshare.3179323
title: Kenya Long-term Exclosure Experiment (KLEE) GPS plot locations

description: This zip file contains 18 .kml files. Each file corresponds with one KLEE plot and is named according to its block (first letter) and treatment (following letters). We collected GPS points from the corners of each of the 18 experimental plots using a Trimble Juno 3B GPS unit with meter-level accuracy. Points were imported into QGIS and used to created polygons of each experimental plot. Polygons were then saved as Google Earth .kml files.
DOI: 10.6084/m9.figshare.3179329.v1
title: Kenya Long-term Exclosure Experiment (KLEE) Acacia drepanolobium density and size survey

description: <i>A. drepanolobium</i> makes up approximately 97% of the woody cover in this system. This Excel file contains <i>Acacia drepanolobium</i> density and size distributions in each of the of the 18 KLEE plots. Surveys were conducted in 2011. Trees were surveyed along three 4 m x 100 m transects within each KLEE plot. Each row represents data from one transect. Columns indicate experimental block, plot, number of trees in each of five size classes, and total number of trees for each transect. Additional data for non<i>-drepanolobium</i> woody species, as well as a newly updated 2015 tree survey, are available upon request.
DOI: 10.6084/m9.figshare.3179320.v1
title: Kenya Long-term Exclosure Experiment (KLEE) Rainfall 2003-2016

description: Rainfall measurements were recorded from manual rain gauges located along the fence lines of the Kenya Long-term Exclosure Experiment (KLEE). There are a total of three rain gauges. Each KLEE block has one manual rain gauge. Exact GPS locations are located in the “GPS locations” sheet of this document. Rainfall dates are recorded and gauge measurements are taken as soon as possible after rainfall events. This Excel worksheet has rainfall data from each of the three replicate KLEE blocks since 2003. There are separate worksheets for daily rainfall, monthly rainfall (since 1996), and yearly rainfall (since 1996). Additional monthly and yearly rainfall data since 1996 are available upon request. Measurements are taken in millimeters. Columns North, Central, and South refer to gauge readings taken in the north, central, and south blocks of KLEE. <br>
DOI: 10.6084/m9.figshare.3179323.v1
title: Kenya Long-term Exclosure Experiment (KLEE) GPS plot locations

description: This zip file contains 18 .kml files. Each file corresponds with one KLEE plot and is named according to its block (first letter) and treatment (following letters). We collected GPS points from the corners of each of the 18 experimental plots using a Trimble Juno 3B GPS unit with meter-level accuracy. Points were imported into QGIS and used to created polygons of each experimental plot. Polygons were then saved as Google Earth .kml files.
DOI: 10.6084/m9.figshare.3179476.v6
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3179476.v7
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3179476.v8
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3179158
title: Genetic Variants in <i>IL6R</i> and <i>ADAM19</i> are Associated with COPD Severity in a Mexican Mestizo Population

description: Chronic obstructive pulmonary disease (COPD) is a complex and multifactorial disease with a strong genetic component. Our objective is to identify the genetic variants associated with COPD risk and its severity in Mexican Mestizo population. We evaluated 1285 single-nucleotide polymorphisms (SNPs) of candidate genes in 299 smokers with COPD (COPD-S) and 531 smokers without COPD (SWOC) using an Illumina GoldenGate genotyping microarray. In addition, 251 ancestry informative markers were included. Allele A of rs2545771 in <i>CYP2F2P</i> is associated with a lower risk of COPD (<i>p</i> = 4.02E-10, odds ratio [OR] = 0.104, confidence interval [CI] 95% 0.05–0.18). When the COPD group was stratified by severity according to the Global Initiative for Chronic Obstructive Lung Disease (GOLD; levels III + IV <i>vs</i>. I + II), 3 SNPs (rs4329505 and rs4845626 in <i>interleukin 6 receptor [IL6R</i>] and rs1422794 in <i>a disintegrin and metalloproteinase domain 19 [ADAM19</i>]) were associated with a lower risk of suffering the most severe stages of the disease. rs2819096 in the <i>surfactant protein D</i> (<i>SFTPD</i>) gene was associated with a higher risk of COPD GOLD III + IV (<i>p</i> = 7.79E-03, OR = 1.80, CI 95% 1.16–2.79). Finally, the haplotype in <i>IL6R</i> was associated with a lower risk of suffering from more severe COPD, whereas the haplotype in <i>ADAM19</i> was associated with a higher risk (<i>p</i> = 7.40E-03, OR = 2.83, CI 95% 1.20–6.86) of suffering from the severe stages of the disease. Our data suggest that there are alleles and haplotypes in the <i>IL6R, ADAM19,</i> and <i>SFTPD</i> genes associated with different severity stages of COPD; in <i>CYP2F2P</i>, rs25455771 is associated with a lower risk of COPD.
DOI: 10.6084/m9.figshare.3179158.v1
title: Genetic Variants in <i>IL6R</i> and <i>ADAM19</i> are Associated with COPD Severity in a Mexican Mestizo Population

description: Chronic obstructive pulmonary disease (COPD) is a complex and multifactorial disease with a strong genetic component. Our objective is to identify the genetic variants associated with COPD risk and its severity in Mexican Mestizo population. We evaluated 1285 single-nucleotide polymorphisms (SNPs) of candidate genes in 299 smokers with COPD (COPD-S) and 531 smokers without COPD (SWOC) using an Illumina GoldenGate genotyping microarray. In addition, 251 ancestry informative markers were included. Allele A of rs2545771 in <i>CYP2F2P</i> is associated with a lower risk of COPD (<i>p</i> = 4.02E-10, odds ratio [OR] = 0.104, confidence interval [CI] 95% 0.05–0.18). When the COPD group was stratified by severity according to the Global Initiative for Chronic Obstructive Lung Disease (GOLD; levels III + IV <i>vs</i>. I + II), 3 SNPs (rs4329505 and rs4845626 in <i>interleukin 6 receptor [IL6R</i>] and rs1422794 in <i>a disintegrin and metalloproteinase domain 19 [ADAM19</i>]) were associated with a lower risk of suffering the most severe stages of the disease. rs2819096 in the <i>surfactant protein D</i> (<i>SFTPD</i>) gene was associated with a higher risk of COPD GOLD III + IV (<i>p</i> = 7.79E-03, OR = 1.80, CI 95% 1.16–2.79). Finally, the haplotype in <i>IL6R</i> was associated with a lower risk of suffering from more severe COPD, whereas the haplotype in <i>ADAM19</i> was associated with a higher risk (<i>p</i> = 7.40E-03, OR = 2.83, CI 95% 1.20–6.86) of suffering from the severe stages of the disease. Our data suggest that there are alleles and haplotypes in the <i>IL6R, ADAM19,</i> and <i>SFTPD</i> genes associated with different severity stages of COPD; in <i>CYP2F2P</i>, rs25455771 is associated with a lower risk of COPD.
DOI: 10.6084/m9.figshare.3179140
title: imaging data

description: Imaging data for HS766t, Mia PaCa-2 and Su.86.86 tumor type from DCE-MRI and Diffusion MRI
DOI: 10.6084/m9.figshare.3179476.v9
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3179026
title: vir1_NCBI_19-10-2015

description: Two fasta sequence datasets downloaded from Genebank nucleotides and Genebank proteins using the Galaxy tool "fetch_fasta_from_ncbi" (https://toolshed.g2.bx.psu.edu/) and the query strings"txid10239[orgn] NOT txid131567[orgn] NOT phage" (nucleotides) and "txid10239[orgn] NOT txid131567[orgn] NOT phage" (proteins), respectively.<br>vir1 nucleotide and protein references are used by the Metavisitor suite of Galaxy tools (https://toolshed.g2.bx.psu.edu/view/drosofff/suite_metavisitor_1_2/e24919521ffb) and described in:"Metavisitor, a modular Galaxy-based software for rapid and high-throughput detection and discovery of viruses in deep sequence data"Authors:Guillaume Carissimo, Marius van den Beek, Juliana Pegoraro, Kenneth D Vernick and Christophe Antoniewski<br><br>
DOI: 10.6084/m9.figshare.3179026.v1
title: vir1_NCBI_19-10-2015

description: Two fasta sequence datasets downloaded from Genebank nucleotides and Genebank proteins using the Galaxy tool "fetch_fasta_from_ncbi" (https://toolshed.g2.bx.psu.edu/) and the query strings"txid10239[orgn] NOT txid131567[orgn] NOT phage" (nucleotides) and "txid10239[orgn] NOT txid131567[orgn] NOT phage" (proteins), respectively.<br>vir1 nucleotide and protein references are used by the Metavisitor suite of Galaxy tools (https://toolshed.g2.bx.psu.edu/view/drosofff/suite_metavisitor_1_2/e24919521ffb) and described in:"Metavisitor, a modular Galaxy-based software for rapid and high-throughput detection and discovery of viruses in deep sequence data"Authors:Guillaume Carissimo, Marius van den Beek, Juliana Pegoraro, Kenneth D Vernick and Christophe Antoniewski<br><br>
DOI: 10.6084/m9.figshare.3178837
title: Community matrix for PeerJ paper in press entitled: "Tree Phyllosphere Bacterial Communities: exploring the magnitude of intra- and inter-individual variation among host species"

description: csv format. All details are in paper.
DOI: 10.6084/m9.figshare.3179476.v10
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178795
title: Metadata for PeerJ paper in press entitled: "Tree Phyllosphere Bacterial Communities: exploring the magnitude of intra- and inter-individual variation among host species"

description: Various variables in metadata needed for R Script for PeerJ paper in press entitled: "Tree Phyllosphere Bacterial Communities: exploring the magnitude of intra- and inter-individual variation among host species"
DOI: 10.6084/m9.figshare.3178780
title: Tetrapod toxic weaponry data

description: Dataset used for the paper 'tempo and mode of the evolution of venom and poison in tetrapods'. For each column, 1 denotes the presence of the trait, 0 denotes its absence, and NA denotes uncertainty (most often due to missing information in the literature, particularly where the species in question falls in an area of the phylogeny where the trait is both present and absent and not, for instance, nestled deeply within a unanimously venomous clade).<br>
DOI: 10.6084/m9.figshare.3179476.v11
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178756
title: A mapping review of international guidance on the management and care of amyotrophic lateral sclerosis (ALS)

description: Management of ALS is suboptimal. Consequently, quality improvement interventions are needed to improve ALS care. An evidence-based insight into how patients should be managed is essential when developing quality improvement interventions. Therefore, this study aimed to map, categorize and summarize international guidance on the management and care of ALS and to identify gaps in this guidance by means of a mapping review. Literature was searched for clinical practice guidelines, quality indicators and evidence-based clinical summaries. A content analysis and meta-synthesis of the included literature was performed. Interventions and outcomes used in the management and care of ALS were identified and categorized. Furthermore, the amount of guidance underpinning these interventions and outcomes was analysed. Six clinical practice guidelines, one set of quality indicators and three evidence-based clinical summaries were identified. The results demonstrated that certain domains in ALS care, mainly disease-specific domains such as breathing and swallowing, are extensively addressed in the literature whereas other subjects, such as care coordination, receive little attention. In conclusion, this mapping review provides a scientific basis for targeting and developing the clinical content of a quality improvement intervention for the management of ALS.
DOI: 10.6084/m9.figshare.3178756.v1
title: A mapping review of international guidance on the management and care of amyotrophic lateral sclerosis (ALS)

description: Management of ALS is suboptimal. Consequently, quality improvement interventions are needed to improve ALS care. An evidence-based insight into how patients should be managed is essential when developing quality improvement interventions. Therefore, this study aimed to map, categorize and summarize international guidance on the management and care of ALS and to identify gaps in this guidance by means of a mapping review. Literature was searched for clinical practice guidelines, quality indicators and evidence-based clinical summaries. A content analysis and meta-synthesis of the included literature was performed. Interventions and outcomes used in the management and care of ALS were identified and categorized. Furthermore, the amount of guidance underpinning these interventions and outcomes was analysed. Six clinical practice guidelines, one set of quality indicators and three evidence-based clinical summaries were identified. The results demonstrated that certain domains in ALS care, mainly disease-specific domains such as breathing and swallowing, are extensively addressed in the literature whereas other subjects, such as care coordination, receive little attention. In conclusion, this mapping review provides a scientific basis for targeting and developing the clinical content of a quality improvement intervention for the management of ALS.
DOI: 10.6084/m9.figshare.3178795.v2
title: Metadata for PeerJ paper in press entitled: "Tree Phyllosphere Bacterial Communities: exploring the magnitude of intra- and inter-individual variation among host species"

description: Various variables in metadata needed for R Script for PeerJ paper in press entitled: "Tree Phyllosphere Bacterial Communities: exploring the magnitude of intra- and inter-individual variation among host species"
DOI: 10.6084/m9.figshare.3178837.v2
title: Community matrix for PeerJ paper in press entitled: "Tree Phyllosphere Bacterial Communities: exploring the magnitude of intra- and inter-individual variation among host species"

description: csv format. All details are in paper.
DOI: 10.6084/m9.figshare.3179476.v12
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178837.v1
title: OTUs_biom_in_csv_intraindividual

description: Community matrix
DOI: 10.6084/m9.figshare.3178678
title: WiZ-COLA: 3600 realisations of cosmological simulations

description: This data set contains 3600 realisations of power spectra from cosmological COLA simulations with identical cosmology. This is useful for covariance matrix computation.
DOI: 10.6084/m9.figshare.3178795.v1
title: Metadata_intraindividual

description: Various metadata for PeerJ paper
DOI: 10.6084/m9.figshare.3178780.v1
title: Tetrapod toxic weaponry data

description: Dataset used for the paper 'tempo and mode of the evolution of venom and poison in tetrapods'.<br>
DOI: 10.6084/m9.figshare.3179476.v13
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178678.v1
title: WiZ-COLA: 3600 realisations of cosmological simulations

description: This data set contains 3600 realisations of power spectra from cosmological COLA simulations with identical cosmology. This is useful for covariance matrix computation.
DOI: 10.6084/m9.figshare.3178780.v2
title: Tetrapod toxic weaponry data

description: Dataset used for the paper 'tempo and mode of the evolution of venom and poison in tetrapods'.<br>
DOI: 10.6084/m9.figshare.3179476.v14
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178780.v4
title: Tetrapod toxic weaponry data

description: Dataset used for the paper 'tempo and mode of the evolution of venom and poison in tetrapods'. For each column, 1 denotes the presence of the trait, 0 denotes its absence, and NA denotes uncertainty (most often due to missing information in the literature, particularly where the species in question falls in an area of the phylogeny where the trait is both present and absent and not, for instance, nestled deeply within a unanimously venomous clade).<br>
DOI: 10.6084/m9.figshare.3178780.v3
title: Tetrapod toxic weaponry data

description: Dataset used for the paper 'tempo and mode of the evolution of venom and poison in tetrapods'.<br>
DOI: 10.6084/m9.figshare.3179476.v15
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178534
title: Data from "Drift in ocean currents impacts intergenerational microbial exposure to temperature"

description: Data behind the three Figures in Doblin, M.A. and Van Sebille, E. (2016). Drift in ocean currents impacts intergenerational microbial exposure to temperature. <i>Proceedings of the National Academies of Sciences</i>, doi:10.1073/pnas.1521093113<br>Each Figure panel is given in csv format as Figure*_data.csv, and with the longitude metadata as Figure*_longitude.csv and the latitude metadata as Figure*_latitude.csv<br>NaN values in the Figure*_data.csv files indicate land<br>
DOI: 10.6084/m9.figshare.3179476.v16
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178510
title: Evidence of oxidative shielding of offspring in a wild mammal

description: Data from the article <br>Vitikainen & Cant et al. 2016: Evidence of oxidative shielding of offspring in a wild mammal<br><br><br><br>
DOI: 10.6084/m9.figshare.3178528
title: Figure S4

description: Krona plots of the results of the blastp best hit (cut off at 40% similarity) for <i>Thermovibrio ammonificans</i> CDS with <i>Desulfurobacterium thermolithotrophum</i> included in the database (A); and <i>D. thermolithotrophum</i> and <i>Desulfurobacterium</i> sp. TC5-1 excluded from the database (best hits are outside of the <i>Desulfurobacteriaceae</i> family) (B).
DOI: 10.6084/m9.figshare.3179476.v17
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178528.v2
title: Figure S4

description: Krona plots of the results of the blastp best hit (cut off at 40% similarity) for <i>Thermovibrio ammonificans</i> CDS with <i>Desulfurobacterium thermolithotrophum</i> included in the database (A); and <i>D. thermolithotrophum</i> and <i>Desulfurobacterium</i> sp. TC5-1 excluded from the database (best hits are outside of the <i>Desulfurobacteriaceae</i> family) (B).
DOI: 10.6084/m9.figshare.3178510.v1
title: Shielding data _Mungos mungo Vitikainen 2016.xlsx

description: Data from the article <br>Vitikainen & Cant et al. 2016: Evidence of oxidative shielding of offspring in a wild mammal<br>
DOI: 10.6084/m9.figshare.3178528.v1
title: Figure S4

description: Krona plots of the results of the blastp best hit (cut off at 40% similarity) for <i>Thermovibrio ammonificans</i> CDS with <i>Desulfurobacterium thermolithotrophum</i> included in the database (A); and <i>D. thermolithotrophum</i> and <i>Desulfurobacterium</i> sp. TC5-1 excluded from the database (best hits are outside of the <i>Desulfurobacteriaceae</i> family) (B).
DOI: 10.6084/m9.figshare.3179476.v18
title: example RDFORM

description: example rdform
DOI: 10.6084/m9.figshare.3178510.v3
title: Evidence of oxidative shielding of offspring in a wild mammal

description: Data from the article <br>Vitikainen & Cant et al. 2016: Evidence of oxidative shielding of offspring in a wild mammal<br><br><br><br>
DOI: 10.6084/m9.figshare.3178510.v2
title: Evidence of oxidative shielding of offspring in a wild mammal

description: Data from the article <br>Vitikainen & Cant et al. 2016: Evidence of oxidative shielding of offspring in a wild mammal<br><br><br><br>
DOI: 10.6084/m9.figshare.3179476.v19
title: example RDFORM

description: This is an example rdform for use with figmeta. This form allows organizational affiliations to be associated with authors on a dataset. Organizations are represented with GRID uri's
DOI: 10.6084/m9.figshare.3175639
title: Using educational prescriptions to teach medical students evidence-based medicine

description: <b>Purpose</b>: To evaluate feasibility and impact of evidence-based medicine (EBM) educational prescriptions (EPs) in medical student clerkships. <b>Methods</b>: Students answered clinical questions during clerkships using EPs, which guide learners through the “four As” of EBM. Epidemiology fellows graded EPs using a rubric. Feasibility was assessed using descriptive statistics and student and fellow end-of-study questionnaires, which also measured impact. In addition, for each EP, students reported patient impact. Impact on EBM skills was assessed by change in EP scores over time and scores on an EBM objective structured clinical exam (OSCE) that were compared to controls from the prior year. <b>Results</b>: 117 students completed 402 EPs evaluated by 24 fellows. Average score was 7.34/9.00 (SD 1.58). 69 students (59%) and 21 fellows (88%) completed questionnaires. Most students thought EPs improved “Acquiring” and “Appraising”. Almost half thought EPs improved “Asking” and “Applying”. Fellows did not value grading EPs. For 18% of EPs, students reported a “change” or “potential change” in treatment. 56% “confirmed” treatment. EP scores increased by 1.27 (95% CI: 0.81–1.72). There were no differences in OSCE scores between cohorts. <b>Conclusions</b>: Integrating EPs into clerkships is feasible and has impact, yet OSCEs were unchanged, and research fellows had limitations as evaluators.
DOI: 10.6084/m9.figshare.3176152
title: dataset328.sav

description: Dataset for neuropathy and balance article