cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.10005953
title: High plant taxonomic beta diversity and functional and phylogenetic convergence between two Neotropical inselbergs

description: <b>Background</b>: Inselbergs (granitic and gneissic rock outcrops) are common elements in the Atlantic Forest and present large taxonomic (TD), functional (FD) and phylogenetic (PD) diversity. <b>Aims</b>: We investigated how plant diversity changed across ecological and biogeographic scales by comparing TD, FD and PD of communities within and between two inselbergs. We expected converging FD and PD but distinct TD between outcrops, because of similar local environmental conditions in inselbergs and the long-term lineage isolation. <b>Methods</b>: We calculated TD, PD and FD, and partitioned diversity into α (each inselberg), β (between inselbergs) and γ (whole sample) components. Phylogenetic signal was estimated for all traits. To link environmental predictors to functional traits a redundancy analysis was run. Variation in TD, FD and PD was analysed by general linear models with patch area and the two inselbergs as predictors. <b>Results</b>: The inselbergs were taxonomically different, but showed convergence in their functional and phylogenetic diversity. The limited retention of phylogenetic signal suggests that different species may converge and respond similarly to environmental variables. Within inselbergs, larger patches displayed higher TD, FD and PD. <b>Conclusions</b>: Seeking conservation strategies for inselbergs is challenging since, despite their functional and phylogenetic similarity, endemic species make individual rock outcrops unique.
DOI: 10.6084/m9.figshare.10005959
title: Litter accumulation and biomass dynamics in riparian zones in tropical South America of the Asian invasive plant <i>Hedychium coronarium</i> J. König (Zingiberaceae)

description: <b>Background</b>: Promoting changes in abiotic conditions and ecosystem processes, such as decomposition, is a mechanism by which some exotic plant species displace native plants and become invasive. <b>Aims</b>: We monitored ramets of Hedychium coronarium over 30 months to estimate the litter decay rate, biomass dynamics and litter accumulation over time in riparian sites invaded by the species in southeastern Brazil. <b>Methods</b>: We measured the number, height, emergence and mortality of ramets in three environments invaded by H. coronarium (natural, rural and urban). We also measured litter decay in situ and in in vitro experiments. We used sinusoidal models to describe height fluctuation and exponential models to simulate litter decay and litter accumulation. <b>Results</b>: Ramets of H. coronarium showed high seasonal variation in terms of height and emergence, as well as low litter decay. Accordingly, our models predicted high litter production and a seasonal pattern of litter accumulation in invaded sites. <b>Conclusions</b>: H. coronarium produces a great amount of litter, which shows slow decay and hence seems to affect decomposition processes. Investigating seasonal variation on the effects of invasive species on ecosystem functioning shed light on the factors driving the success and impact of invasive plants.
DOI: 10.6084/m9.figshare.10005971.v1
title: data for 2019JG005240

description: This dataset belongs to a JGR-Biogeosciences manuscript entitled 'Isotope constraints on the source to sink of particulate organics in a subtropical deep reservoir'. Please cite the according reference if you want to use the data.
DOI: 10.6084/m9.figshare.10005959.v1
title: Litter accumulation and biomass dynamics in riparian zones in tropical South America of the Asian invasive plant <i>Hedychium coronarium</i> J. König (Zingiberaceae)

description: <b>Background</b>: Promoting changes in abiotic conditions and ecosystem processes, such as decomposition, is a mechanism by which some exotic plant species displace native plants and become invasive. <b>Aims</b>: We monitored ramets of Hedychium coronarium over 30 months to estimate the litter decay rate, biomass dynamics and litter accumulation over time in riparian sites invaded by the species in southeastern Brazil. <b>Methods</b>: We measured the number, height, emergence and mortality of ramets in three environments invaded by H. coronarium (natural, rural and urban). We also measured litter decay in situ and in in vitro experiments. We used sinusoidal models to describe height fluctuation and exponential models to simulate litter decay and litter accumulation. <b>Results</b>: Ramets of H. coronarium showed high seasonal variation in terms of height and emergence, as well as low litter decay. Accordingly, our models predicted high litter production and a seasonal pattern of litter accumulation in invaded sites. <b>Conclusions</b>: H. coronarium produces a great amount of litter, which shows slow decay and hence seems to affect decomposition processes. Investigating seasonal variation on the effects of invasive species on ecosystem functioning shed light on the factors driving the success and impact of invasive plants.
DOI: 10.6084/m9.figshare.10005971.v2
title: Data for 2019JG005240

description: This dataset belongs to a JGR-Biogeosciences manuscript entitled 'Isotope constraints on the source to sink of particulate organics in a subtropical deep reservoir'. Please cite the according reference if you want to use the data.
DOI: 10.6084/m9.figshare.10005410
title: MOESM1 of Assessing the validity of the clinician-rated distress thermometer in palliative care

description: Additional file 1. BDD-NUANCE-V4F430606.accdb. Description of data: data from all patients (demographic and clinical characteristics, DT). (ACCDB 1344 kb)
DOI: 10.6084/m9.figshare.10005410.v1
title: MOESM1 of Assessing the validity of the clinician-rated distress thermometer in palliative care

description: Additional file 1. BDD-NUANCE-V4F430606.accdb. Description of data: data from all patients (demographic and clinical characteristics, DT). (ACCDB 1344 kb)
DOI: 10.6084/m9.figshare.10005170
title: Datasets for: Spatial Dynamics and the Basic Reproduction Number of the Great Cholera Epidemic in Peru, 1991-1997

description: Datasets:1) Dataset cholera cases.xlsx contains the time series of cholera cases by department2) Covariates Data Peru.xlsx contains covariates at the level of departments in Peru3) data-meanTempss.xls contains the time series of weekly mean temperature <br>3) data-minTempss.xls contains the time series of weekly minimum temperature <br>3) data-meanTempss.xls contains the time series of weekly maximum temperature<br><br>
DOI: 10.6084/m9.figshare.10005065
title: Treatment with commonly used antiretroviral drugs induces a type I/III interferon signature in the gut in the absence of HIV infection: RNAseq from MTN-017

description: The purpose of this data set was to measure how the expression of RNA transcripts in rectal biopsies is affected by use of oral tenofovir disoproxil fumarate/emtricitabine, daily rectal tenofovir gel, or pericoital rectal tenofovir gel for prevention of HIV infection. Transcripts were measured by RNAseq from samples taken from the MTN-017 study at baseline and after two months of each treatment. <br>In the count_matrix tab, each column is a sample and each row is a transcript. Values are counts of transcripts. <br>In the transcript_metadata tab, each row is a transcript. <br>In the sample_metadata tab, each row is a sample.<br>The complete methods and results are described here: https://doi.org/10.1101/701961
DOI: 10.6084/m9.figshare.10005170.v1
title: Datasets for: Spatial Dynamics and the Basic Reproduction Number of the Great Cholera Epidemic in Peru, 1991-1997

description: Datasets:1) Dataset cholera cases.xlsx contains the time series of cholera cases by department2) Covariates Data Peru.xlsx contains covariates at the level of departments in Peru3) data-meanTempss.xls contains the time series of weekly mean temperature <br>3) data-minTempss.xls contains the time series of weekly minimum temperature <br>3) data-meanTempss.xls contains the time series of weekly maximum temperature<br><br>
DOI: 10.6084/m9.figshare.10005059
title: Treatment with commonly used antiretroviral drugs induces a type I/III interferon signature in the gut in the absence of HIV infection: Proteomics from MTN017

description: The purpose of this data set was to measure how the expression of proteins in rectal biopsies is affected by use of oral tenofovir disoproxil fumarate/emtricitabine for prevention of HIV infection. Proteins were measured by mass spectrometry from samples taken from the MTN-017 study at baseline and after two months of daily oral tenofovir disoproxil fumarate/emtricitabine. <br>In the raw_data tab, each row is a sample. There are several columns describing each sample and then many columns containing the expression level for each detected protein. Expression levels were adjusted for batch effects using ComBat. <br>In the protein_lookup tab, there is one row per protein detected, mapping from UniProt ID to gene symbol and Entrez Gene ID. <br>The complete methods and results are described here: https://doi.org/10.1101/701961
DOI: 10.6084/m9.figshare.10005074
title: Woodpecker data

description: Environmental layers for species distribution modelling in Chile
DOI: 10.6084/m9.figshare.10005074.v1
title: Woodpecker data

description: Environmental layers for species distribution modelling in Chile
DOI: 10.6084/m9.figshare.10005047
title: Smaltophilia_wgMLST_all-alleles.fasta.gz

description: This FASTA file contains all loci of the whole genome Multilocus sequence typing scheme for Stenotrophomonas maltophilia, as preprinted in the reference below. <br>The different loci are separated as follows:&gt;STENO_LociNumber_AlleleNumber<br>
DOI: 10.6084/m9.figshare.10005056
title: TCC Pabenos.pdf

description: <pre>Final work of undergraduate research in Chemistry</pre><pre><pre>The increasing use of cosmetics and household products, increasing the deposition in the environment of new pollutants synthesized every day, are emerging pollutants of which little is known about their degradation or effects on aquatic communities. Among these compounds are the parabens that are used due to their antimicrobial action in products of diffuse origin such as cosmetics, drugs, among others. Studies show the relationship of these compounds with carcinomas and alteration of the endocrine system of animals. Laboratory analysis of these compounds can be performed with HPLC-High Performance Liquid Chromatography, but as complex matrices are generally analyzed, where these compounds are present at trace level, clean up and pre-concentration of samples are essential. In the present work, molecular printing polymers (MIP) were synthesized for application in solid phase extraction cartridges, used in the preparation of samples of environmental interest, allowing the clean up of the sample and pre-concentration of the analyte of interest, in this case. methylparaben. The methodology adopted for polymer synthesis was bulk polymerization; This reaction occurs through non-covalent interactions.</pre></pre>
DOI: 10.6084/m9.figshare.10005059.v2
title: Treatment with commonly used antiretroviral drugs induces a type I/III interferon signature in the gut in the absence of HIV infection: Proteomics from MTN017

description: The purpose of this data set was to measure how the expression of proteins in rectal biopsies is affected by use of oral tenofovir disoproxil fumarate/emtricitabine for prevention of HIV infection. Proteins were measured by mass spectrometry from samples taken from the MTN-017 study at baseline and after two months of daily oral tenofovir disoproxil fumarate/emtricitabine. <br>In the raw_data tab, each row is a sample. There are several columns describing each sample and then many columns containing the expression level for each detected protein. Expression levels were adjusted for batch effects using ComBat. <br>In the protein_lookup tab, there is one row per protein detected, mapping from UniProt ID to gene symbol and Entrez Gene ID. <br>The complete methods and results are described here: https://doi.org/10.1101/701961
DOI: 10.6084/m9.figshare.10005065.v1
title: RNAseq_MTN017.xlsx

description: The purpose of this data set was to measure how the expression of RNA transcripts in rectal biopsies is affected by use of oral tenofovir disoproxil fumarate/emtricitabine, daily rectal tenofovir gel, or pericoital rectal tenofovir gel for prevention of HIV infection. Transcripts were measured by RNAseq from samples taken from the MTN-017 study at baseline and after two months of each treatment. <br>In the count_matrix tab, each column is a sample and each row is a transcript. Values are counts of transcripts. <br>In the transcript_metadata tab, each row is a transcript. <br>In the sample_metadata tab, each row is a sample.<br>The complete methods and results are described here: https://www.biorxiv.org/content/10.1101/701961v1
DOI: 10.6084/m9.figshare.10005059.v1
title: Proteomics_MTN017.xlsx

description: The purpose of this data set was to measure how the expression of proteins in rectal biopsies is affected by use of oral tenofovir disoproxil fumarate/emtricitabine for prevention of HIV infection. Proteins were measured by mass spectrometry from samples taken from the MTN-017 study at baseline and after two months of daily oral tenofovir disoproxil fumarate/emtricitabine. <br>In the raw_data tab, each row is a sample. There are several columns describing each sample and then many columns containing the expression level for each detected protein. Expression levels were adjusted for batch effects using ComBat. <br>In the protein_lookup tab, there is one row per protein detected, mapping from UniProt ID to gene symbol and Entrez Gene ID. <br>The complete methods and results are described here: https://www.biorxiv.org/content/10.1101/701961v1
DOI: 10.6084/m9.figshare.10003406
title: Foot-core training for preventing running-related injuries: a survival analysis of a single-blind randomized controlled trial

description: Real dataset of assessed at baseline and randomly allocated to either an intervention (n=56) or control (n=62)group. The intervention group received an 8-week course of training focused on the foot-ankle muscles. Thetraining protocol included 12 exercises performed 3 times a week. Assessments consisted of three separatebiomechanical evaluations of foot strength and foot posture, and a weekly report on each participant’s runningdistance, pace, and injury incidence over 12 months.
DOI: 10.6084/m9.figshare.10003415.v1
title: Untitled Item

description: Enhanced DOAJ data - Walt Crawford GOAJ and Scopus data added to DOAJ dataset as of 12/2018.
DOI: 10.6084/m9.figshare.10003562.v1
title: Dataset for "The Pricing of Open Access Journals: Diverse Niches and Sources of Value in Academy Publishing."

description: Enhanced DOAJ data from 12/2018. Walt Crawford GOAJ dataset and Scopus data also appended. Additional variables on journal size added.
DOI: 10.6084/m9.figshare.10003385
title: Rock content at cold-spot craters

description: A list of the cold-spot craters used by Elder et al. (2019) JGR. Table includes columns for an assigned identification (ID) number, the longitude (degrees), the latitude (degrees), the crater diameter (m), the Diviner rock abundance (Bandfield et al., 2011) in an annulus surrounding the crater and extending from the crater rim to one crater radius away from the rim, and the Hrock value (m) calculated from the inferred crater excavation depth and the measured Diviner rock abundance (see section 2 of Elder et al. (2019)). <br><br>Authors: Elder, C.M., Jet Propulsion Laboratory, California Institute of Technology; Douglass, B., University of Colorado, Boulder; Ghent, R.R., Planetary Science Institute; Hayne, P.O., University of Colorado, Boulder; Williams, J.-P., University of California, Los Angeles; Bandfield, J.L., Space Science Institute; Costello, E., University of Hawaii, Manoa.<br>
DOI: 10.6084/m9.figshare.10003385.v1
title: Rock content at cold-spot craters

description: A list of the cold-spot craters used by Elder et al. (2019) JGR. Table includes columns for an assigned identification (ID) number, the longitude (degrees), the latitude (degrees), the crater diameter (m), the Diviner rock abundance (Bandfield et al., 2011) in an annulus surrounding the crater and extending from the crater rim to one crater radius away from the rim, and the Hrock value (m) calculated from the inferred crater excavation depth and the measured Diviner rock abundance (see section 2 of Elder et al. (2019)). <br><br>Authors: Elder, C.M., Jet Propulsion Laboratory, California Institute of Technology; Douglass, B., University of Colorado, Boulder; Ghent, R.R., Planetary Science Institute; Hayne, P.O., University of Colorado, Boulder; Williams, J.-P., University of California, Los Angeles; Bandfield, J.L., Space Science Institute; Costello, E., University of Hawaii, Manoa.<br>
DOI: 10.6084/m9.figshare.10003562.v2
title: Dataset for "The Pricing of Open Access Journals: Diverse Niches and Sources of Value in Academic Publishing."

description: Enhanced DOAJ data from 12/2018. Walt Crawford GOAJ dataset and Scopus data also appended. Additional variables on journal size added.
DOI: 10.6084/m9.figshare.10003334
title: The association between stressors and telomeres in non-human vertebrates: a meta-analysis

description: To improve our understanding of stress-induced telomere dynamics in non-human vertebrates, we analysed 109 relevant studies in a meta-analytical framework. From those 109 studies, 28 were also used to test whether the stressor-telomeres association is mediated by oxidative stress. The data files contain the list of studies included in the meta-analysis ("DOI"), the Z-score ("Effect size") of all the relationships between stressor exposure and telomeres, and stressor exposure and oxidative stress extracted from the papers, and the 12 moderators included in the analyses (e.g. "Stressor category", "Telomere measure", etc). <br> The R script and additional data files can be found at: https://github.com/szymekdr/telomeres_stress_meta
DOI: 10.6084/m9.figshare.10003562.v3
title: Dataset for "The Pricing of Open Access Journals: Diverse Niches and Sources of Value in Academic Publishing."

description: Enhanced DOAJ data from 12/2018. Walt Crawford GOAJ dataset and Scopus data also appended. Additional variables on journal size added.
DOI: 10.6084/m9.figshare.10003268
title: Differential expression of circulating markers of calcific aortic valve disease

description: Differential protein expression of circulating markers of calcific aortic valve disease in healthy control vs aortic valve sclerosis patients, aortic valve sclerosis vs aortic stenosis patients, and healthy control vs aortic stenosis patients (Table S8). Table S9 contains a full multivariate analysis of circulating analytes.
DOI: 10.6084/m9.figshare.10003259
title: Differential gene expression of human sclerotic vs stenotic aortic valves, with low and high overlap

description: Human aortic valve tissue was obtained from patients undergoing cardiac surgical procedures. Differential gene expression of human sclerotic vs stenotic aortic valves, with a low (FPKM &gt; 1) and high (FPKM &gt; 100) degrees over overlap. For the low overlap group (Table S4), differential genes expression is demonstrated for the stenotic (Table S2) and sclerotic (Table S3) cohorts. For the high overlap group (Table S7), differential gene expression is demonstrated for the stenotic (Table S5) and the stenotic (Table S6) cohorts <br>
DOI: 10.6084/m9.figshare.10003208
title: Animal Use Table Figshare.pptx

description: This table describes the animals ID and their contribution to specific experiments and figures in Balnis paper of muscle dysfunction in pulmonary emphysema
DOI: 10.6084/m9.figshare.10003193
title: Differentially expressed genes in AVSc vs AS by RNA sequencing

description: Human aortic valve tissue was obtained from patients undergoing cardiac surgical procedures. Differentially expressed genes in aortic valve sclerosis vs stenosis, obtained from human sclerotic and stenotic aortic valves.
DOI: 10.6084/m9.figshare.10003208.v2
title: Animal Use Table Figshare.pptx

description: This table describes the animals ID and their contribution to specific experiments and figures in Balnis paper of muscle dysfunction in pulmonary emphysema
DOI: 10.6084/m9.figshare.10003208.v1
title: Animal Use Table Figshare.pptx

description: This table describes the animals ID and their contribution to specific experiments and figures in Balnis paper of muscle dysfunction in pulmonary emphysema
DOI: 10.6084/m9.figshare.10003133
title: HIV1V1V1.fasta

description: Fasta file from 3DPCR sequencing of APOBEC1 edited DNA sequences<br>
DOI: 10.6084/m9.figshare.10003127
title: Metadata record for: A transcriptomic study of Williams-Beuren syndrome associated genes in mouse embryonic stem cells

description: This dataset contains key characteristics about the data described in the Data Descriptor A transcriptomic study of Williams-Beuren syndrome associated genes in mouse embryonic stem cells. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.10003058
title: Development of risk models for major adverse chronic renal outcomes among patients with type 2 diabetes mellitus using insurance claims: a retrospective observational study

description: <b>Objective:</b> To develop and validate models allowing the prediction of major adverse chronic renal outcomes (MACRO) in patients with type 2 diabetes mellitus (T2DM) using insurance claims data. <b>Methods:</b> The Optum Integrated Real World Evidence Electronic Health Records and Claims de-identified database (10/01/2006–09/30/2016) was used to identify T2DM patients ≥50 years old. Risk factors were assessed over a 12-month baseline period, and MACRO were subsequently assessed until the end of data availability, continuous enrollment, or death. Separate models were built for moderate-to-severe diabetic kidney disease (DKD), end-stage renal disease (ESRD), and renal death. A random split-sample approach was employed, where 70% of the sample served for model development (training set) and the remaining 30% served for validation (testing set). C-statistics were used to assess model performance. <b>Results:</b> A total of 160,031 patients were included. Risk factors associated with MACRO for all models included adapted diabetes complications severity index, heart failure, anemia, diabetic nephropathy, and CKD. C-statistics ranged between 0.70 (moderate-to-severe DKD) and 0.84 (renal death) in the testing set. A substantial proportion (e.g. 88.7% for moderate-to-severe DKD) of patients predicted to be at high-risk of MACRO did not have diabetic nephropathy, proteinuria, or CKD at baseline. <b>Conclusions:</b> The models developed using insurance claims data could reliably predict the risk of MACRO in patients with T2DM and enabled patients at higher-risk of DKD to be identified in the absence of baseline diabetic nephropathy, CKD, or proteinuria. These models could help establish strategies to reduce the risk of MACRO in T2DM patients.