Find research datasets worth reusing

opencc-by-4.0Jan 2020View details →

Data from Comparative effectiveness of common therapies for Wilson disease: A systematic review and meta‐analysis of controlled studies

<p>This dataset contains three text files in RIS format. They represent the screening process during study selection for "Comparative effectiveness of common therapies for Wilson disease: A systematic review and meta‐analysis of controlled studies" (<a href="https://doi.org/10.1111/liv.14179">https://doi.org/10.1111/liv.14179</a>). The file DOKU_All TiAb-Screening_20200116_cap contains all 3453 records (merged from original and update search) that were subjected to title-abstract screening. The file DOKU_All FT-Screening_20200116_cap contains all 174 records that were subjected to full-text screening. The file DOKU_All Included_20200116_cap contains all 26 records that were included into the final review.</p> <p>In addition, a PRISMA flow diagram (Fig. 1 in the paper) is available in TIF format.</p>

opencc-by-4.0Jun 2022View details →

Core bibliometric Covid19 and comparable research dataset and code for the study "From intent to impact: Investigating the effects of open sharing commitments"

<p>This document provides the underlying dataset for the bibliometric component for the 2022 study "From intent to impact: Investigating the effects of open sharing commitments" by Research Consulting and Science-Metrix.</p> <p>Before reproducing the study findings or re-using the underlying datasets for other purposes, please cautiously review their limitations in the study's technical annex and main report, available at: https://zenodo.org/communities/data-sharing-in-public-health-emergencies/ </p> <p>Particularly, note that there is an error rate in attribution of signatory status to journal publications and preprints; in their location within specific thematic disease-based areas; or computing of dimension such as identification of data availability statement sections; identification of data depisition mentions within data availability statement sections; or matching of preprints and journal publications.</p> <p>These error rates are expected and have been estimated, please consult the technical report for full details.</p> <p> </p> <p>Definition of data fields is provided is the table below:</p> <table> <tbody> <tr> <td>Column name </td> <td>Definition</td> </tr> <tr> <td>document_type</td> <td>preprint or journal publication</td> </tr> <tr> <td>doi</td> <td>digital object identifier</td> </tr> <tr> <td>arxiv_id</td> <td>arXiv preprint server's unique identifier for its preprints</td> </tr> <tr> <td>ssrn_id</td> <td>SSRN preprint server's unique identifier for its preprints. Note that some of these IDs are contained within the DOIs also assigned to some (but not all) SSRN preprints , in the form of "10.2139/ssrn." + 'ssrn_id'</td> </tr> <tr> <td>coalesce_id</td> <td>coalesce function applied to the DOI, arxiv_id and ssrn_id. Redundant for journal publications.</td> </tr> <tr> <td>preprint_server</td> <td>Preprint platform on which a preprint has been published, restricted to arXiv, bioRxiv, medRxiv and SSRN for this study.</td> </tr> <tr> <td>journal_title</td> <td>Publishing journal name in the case of a journal publication.</td> </tr> <tr> <td>year</td> <td>The set is restricted to 2020 and 2021 for Covid19 preprints and journal publications. HVRD journal publications restricted to 2018-2019. HVRD preprints were restricted to 2020-2021 instead, to compensate for the lac of year-normalization for preprints, and generally better control findings against the launch of medRxiv in 2019.</td> </tr> <tr> <td>publication_title</td> <td>Title of the individual journal publication or preprint, not that of the publishing journal or preprint server.</td> </tr> <tr> <td>authors</td> <td>First 100 researchers that appear as authors of a preprint or journal publication. These are not parsed and provided for qualitative validation or  assessments rather than for further quantitative treatment.</td> </tr> <tr> <td>Covid19</td> <td>Journal publications or preprints are coded 1 if they has been identified as falling into this thematic area through our queries (see the technical annex), 0 otherwise</td> </tr> <tr> <td>HVRD</td> <td>Human viral respiratory disease, the thematic area considered to be the closest to Covid19. Journal publications or preprints are coded 1 if they has been identified as falling into this thematic area through our queries (see the technical annex), 0 otherwise</td> </tr> <tr> <td>Journal_sig</td> <td>Journal publications where the publishing journal and/or its publishing house are Joint Statement signatories. Coded as 1 if they are signatories, 0 if not signatory, null if status could not be determined due to insufficient metadata. Not that all preprint servers included in this study are Joint Statement signatories. This category was fully removed from the models for preprints, rather than all preprints being assigned automatic signatory status.</td> </tr> <tr> <td>RPO_sig</td> <td>Journal publications and preprints where at least one author is affiliated with at least one research performing organization that is a Joint Statement signatory. Coded as 1 ifor signatory, 0 if not signatory, null if status could not be determined due to insufficient metadata.</td> </tr> <tr> <td>Funder_sig</td> <td>Journal publications and preprints where at least one funder supporting the research is a Joint Statement signatory. Coded as 1 ifor signatory, 0 if not signatory, null if status could not be determined due to insufficient metadata. Although funding is attributed to researchers rather than publications, funding metadata is more readily available at the second level. This approach also captures the flexible usage of financial resources that researchers may make accross mulitple concurrently ongoing research projects.</td> </tr> <tr> <td>overton_norm</td> <td>Year and subfield-normalized binary score of whether the journal publications has been cited by one or more policy-related documents from the Overton database. Null scores for journal publications not covered by the database.</td> </tr> <tr> <td>overton</td> <td>Normalizations being unable for preprints, binary score of whether the preprint has been cited by one or more policy-ralated documents from the Overton database. Null scores for preprints not covered by the database.</td> </tr> <tr> <td>daswriting_binary</td> <td>Binary score capturing identification of a data availability statement in the journal publication or preprint using the queries presented in the technical annex. Null scores are for publications and preprints where records of full texts were unavailable for text mining, or were this analysis could not be performed due to licensing restrictions. </td> </tr> <tr> <td>deposition_binary</td> <td>Binary score capturing identification of a data availability statement and data deposition mention therein in the journal publication or preprint using the queries presented in the technical annex. Null scores are for publications and preprints where records of full texts were unavailable for text mining, or were this analysis could not be performed due to licensing restrictions. </td> </tr> <tr> <td>is_oa</td> <td>Binary score capturing OA or free-to-read (also so-calleod "bronze OA" and "green OA") status of journal publications. Unpaywall categories have been used in a mutually exclusive implementation, with the best (gold > hybrid>bronze>green) possible applicable category being retained. Null scores for journal publications not covered in our Unpaywall dataset. Scores of 0 denote journal publications not available under an OA or free-to-read category.</td> </tr> <tr> <td>is_gold</td> <td>as above</td> </tr> <tr> <td>is_hybrid</td> <td>as above</td> </tr> <tr> <td>is_bronze</td> <td>as above</td> </tr> <tr> <td>is_green</td> <td>as above</td> </tr> <tr> <td>matched_journal_binary</td> <td>For preprints, whether one or more matching journal publications could be identified using the queries identified in the technical, or preprint servers' own lists of preprint-journal publication matches. Null scores for preprints with insufficient metadata information to perform the matching operation.</td> </tr> <tr> <td>matched_journal_doi</td> <td>For those preprints with or more matching journal publications, the DOI(s) of the matching journal publication(s). Note that some of the maching journal publications identified do not have DOIs.</td> </tr> <tr> <td>matched_preprint_binary</td> <td>For journal publications, whether one or more matching preceding preprints could be identified using the queries identified in the technical annex, or preprint servers' own lists of preprint-journal publication matches. Null scores for journal publications without sufficient metadata to run the analysis.</td> </tr> <tr> <td>matched_preprint_id</td> <td>For those journal publications preceded with one or more arXiv, bioRxiv, medRxiv or SSRN preprints, the DOI(s), arXiv ID and/or SSRN ID of the matching preprint(s). </td> </tr> <tr> <td>hasdoi</td> <td>Only journal publications with DOIs were retained in the core quantitative analyses.</td> </tr> <tr> <td>hasacknowledgements</td> <td>Only journal publications with funding acknowledgements (to determine funding-based signatory status) were retained in the core quantitative analyses.</td> </tr> <tr> <td>funder_array</td> <td>Array (but cast as string) of names of the funders on the basis of whose idenitification signatory status has been attributed, where relevant. Null if non-signatory or unknown signatory status.</td> </tr> <tr> <td>RPO_array</td> <td>Array (but cast as string) of names of the research performing organizations on the basis of whose idenitification signatory status has been attributed, where relevant. Null if non-signatory or unknown signatory status.</td> </tr> <tr> <td>DAS_excerpt</td> <td>Journal publication or preprint text excerpt on which succesful identifcation of data availability statements and/or data deposition mentions have been made. Null both where the query could not be run at all, or where the query was negative.</td> </tr> <tr> <td>big5</td> <td>Journal publication published in a journal owned by one of the following five publishing houses: Elsevier, Sage, Springer Nature, Taylor-Francis, Wiley.</td> </tr> <tr> <td>LMIC</td> <td>Journal publication whose authors include at least one researcher affiliated with at least one institution located in a lower-middle income country as defined by the World Bank</td> </tr> <tr> <td>LIC</td> <td>Journal publication whose authors include at least one researcher affiliated with at least one institution located in a low income country as defined by the World Bank</td> </tr> <tr> <td>SouthNorth</td> <td>Journal publication whose authors include at least one researcher affiliated with at least one institution located in a upper-middle income country, a lower-middle income country, or a low income country as defined by the World Bank; as well as at least one researcher affiliated with at least one institution located in a high income country. For the purpose of this indicator, Sicnece-Metrix exceptionally includes China and Bulgaria in the list of high income countries.</td> </tr> <tr> <td>DID_allauthors_OR</td> <td>Journal publication is included in the difference-in-difference model defining signatory publication as EITHER holding journal-based signatory status OR funding-based signatory status, and where no filter has been applied to control for author-level biases.</td> </tr> <tr> <td>DID_authorcontrol_OR</td> <td>Journal publication is included in the difference-in-difference model defining signatory publication as EITHER holding journal-based signatory status OR funding-based signatory status, and where a filter has been applied to control for author-level biases.</td> </tr> <tr> <td>DID_authorcontrol_AND</td> <td>Journal publication is included in the difference-in-difference model defining signatory publication as holding journal-based signatory status AND funding-based signatory status, and where a filter has been applied to control for author-level biases.</td> </tr> <tr> <td>DID_allauthors_AND</td> <td>Journal publication is included in the difference-in-difference model defining signatory publication as holding journal-based signatory status AND funding-based signatory status, and where no filter has been applied to control for author-level biases.</td> </tr> <tr> <td>Preprint_authorcontrol</td> <td>Preprint is included in the the analytical breakdowns where a filter has been applied to control for author-level biases. Note that authors have been kept constant in preprints on the basis of their belonging to all analytical breakdowns in journal publications rather than in preprint-based groups.</td> </tr> </tbody> </table> <p> </p>

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Data for empirical example in: An effect size for comparing the strength of morphological integration across studies

<p>Understanding how and why phenotypic traits covary is a major interest in evolutionary biology. Biologists have long sought to characterize the extent of morphological integration in organisms, but comparing levels of integration for a set of traits across taxa has been hampered by the lack of a reliable summary measure and testing procedure. Here we propose a standardized effect size for this purpose, calculated from the relative eigenvalue variance, Vrel. First we evaluate several eigenvalue dispersion indices under various conditions, and show that only Vrel remains stable across samples size and the number of variables. We then demonstrate that Vrel accurately characterizes input patterns of covariation, so long as redundant dimensions are excluded from the calculations. However, we also show that the variance of the sampling distribution of Vrel depends on input levels of trait covariation, making Vrel unsuitable for direct comparisons. As a solution, we propose transforming Vrel to a standardized effect size (Z-score) for representing the magnitude of integration for a set of traits. We also propose a two-sample test for comparing the strength of integration between taxa, and show that this test displays appropriate statistical properties. We provide software for implementing the procedure, and an empirical example illustrates its use.</p>

opencc-zeroJul 2022View details →

opencc-by-4.0Apr 2024View details →

Figure 1 in Comparing the effectiveness of pitfall traps and active sampling methods for ants and spiders in a Chromolaena odorata invaded site

Figure 1. Individual-based rarefaction/extrapolation sampling curves representing ant (A) and spider (B) sampling size collected by both active and passive sampling strategies used at Buffelsdraai Conservancy [AHC = aerial hand collection above the knee; AHCCRYPTIC = aerial hand collection below the knee cryptic; AHCOBV = aerial hand collection below the knee noticeable or non-cryptic; BB = vegetation beating].

opencc-by-4.0Apr 2024View details →

Figure 4 in Comparing the effectiveness of pitfall traps and active sampling methods for ants and spiders in a Chromolaena odorata invaded site

Figure 4. Non-metric Multi-Dimensional Scaling (NMDS) representing the similarity of ant (A) and spider (B) species sampled by active and passive sampling techniques. The count abundance was transformed using square root and the data was analysed using Bray-Curtis similarity to produce a two-dimensional plot with a stress level = 0.07 and = 0.01, respectively [AHC CRYPTIC = aerial hand collection below the knee cryptic; AHC OBV = aerial hand collection below the knee noticeable or non-cryptic; AHC = aerial hand collection above the knee; BB = vegetation beating].

opencc-by-4.0Apr 2024View details →

Figure 3 in Comparing the effectiveness of pitfall traps and active sampling methods for ants and spiders in a Chromolaena odorata invaded site

Figure 3. Spider species richness collected using active and passive sampling techniques in Buffelsdraai Conservancy [AHC = aerial hand collection above the knee; AHC CRYPTIC = aerial hand collection below the knee cryptic; AHC OBV = aerial hand collection below the knee noticeable or non-cryptic; BB = vegetation beating].

Figure 3 in Comparative effectiveness of EDTA and citric acid assisted phytoremediation of Ni contaminated soil by using canola (Brassica napus)

Figure 3. The role of EDTA and citric acid on (a) leaf turgor potential and (b) water use efficiency, (c) potassium and (d) sodium at vegetative stage for phytoremediation of Ni by using canola plant.

Figure 4 in Comparative effectiveness of EDTA and citric acid assisted phytoremediation of Ni contaminated soil by using canola (Brassica napus)

Figure 4. The role of EDTA and citric acid on (a) SOD and (b) CAT, (c) POD, (d) total free amino acid, (e) total soluble proteins, (f) total soluble sugars at vegetative stage for phytoremediation of Ni by using canola plant and the role of EDTA and citric acid on Ni contents (mg/ pot) in above ground biomass (g) at vegetative stage for phytoremediation of Ni by using canola.

Figure 1 in Comparative effectiveness of EDTA and citric acid assisted phytoremediation of Ni contaminated soil by using canola (Brassica napus)

Figure 1. The role of EDTA and CA on (a) plant height and (b) shoot fresh weight at the vegetative stage of two canola cultivars (Con-II and Oscar, respectively) in control and Ni treatment and the role of EDTA and citric acid on (c) dry weight and (d) photosynthetic rate at vegetative stage for phytoremediation of Ni by using canola plant.

opencc-by-nc-4.0Oct 2018View details →

Supporting data for "Snap happy: camera traps are an effective sampling tool when compared to alternative methods"

<p>Author recommendations and response ratios extracted from studies comparing camera traps to another survey method. These data underlie the analyses in a the journal article 'Snap happy: camera traps are an effective sampling tool when compared to alternative methods', published in the journal Royal Society Open Science (https://doi.org/10.1098/rsos.181748).  </p>

opencc-by-4.0Feb 2013View details →

Figure 3. The effective population size through recent time for 3 in Comparative analyses of past population dynamics between two subterranean zokor species and the response to climate changes

Figure 3. The effective population size through recent time for 3 clades of Gansu zokor (Eospalax cansus).

opencc-by-4.0Sep 2024View details →

A comparative study of the effectivity of MSC-based, NP-based and combined therapies in an experimental model of NaIO3-induced retinal degeneration

<div><strong>Background</strong></div> <div>Mesenchymal stem cells (MSCs) are currently tested as one of the promising options for the therapy of retinal diseases, due to their immunomodulatory and neuroprotective abilities. However, there are several limitations associated with this type of treatment. Therefore, combinations of MSCs with other therapeutic agents are being considered. One of such approaches is represented by the application of MSCs with nanoparticles (NPs), which are widely used in medicine for their antimicrobial and immunomodulatory properties. Nevertheless, there is a possibility of negative effects of NPs on MSCs.</div> <div><strong>Methods</strong></div> <div>In this study, we tested the <em>in vitro</em> and <em>in vivo</em> effect of silver (Ag) NPs on the properties of MSCs in an experimental mouse model of chronic retinal degeneration induced by sodium iodate.</div> <div><strong>Results</strong></div> <div>The results showed that simultaneous intravitreal administration of MSCs with AgNPs had no effect on the survival of MSCs in the eye, but a less effective regulation of Iba-1 (activated microglia/macrophages) and interleukin-1β expression in the retinal tissue compared to MSCs or AgNP only treated groups was observed. However, all treated groups had decreased expression of the gene for galectin-3 compared to the untreated control. In addition, MSCs applied alone or in combination with AgNPs and sorted from the degenerated retina on day 7 after application had increased expression of genes for specific retinal markers, and for transforming growth factor-β and insulin-like growth factor-1 compared to untreated naïve MSCs. On the contrary, the increased expression of the gene for glial cell-derived growth factor was observed only in the MSCs combined with AgNPs. However, the application of MSCs with AgNPs triggered increased expression for the IL-6 gene in the CD45 cells separated from the retina.</div> <div><strong>Conclusion</strong></div> <div>Overall, the results show that the application of MSCs or AgNPs has an immunomodulatory effect in chronic retinal degeneration, but the combined application of MSCs and AgNPs could decrease the effects of a single therapy.</div>

Dataset: Comparative analysis of 1H NMR and 1H–13C HSQC NMR metabolomics to understand the effects of medium composition in yeast growth

<p>NMR datasets used in https://doi.org/10.1021/acs.analchem.8b01196.</p> <p>In the corresponding study, we have performed a comparative chemometric analysis between untargeted <sup>1</sup>H NMR and <sup>1</sup>H-<sup>13</sup>C HSQC NMR analyses of metabolomics samples from <em>Saccharomyces cerevisiae</em> (yeast) extracts. Specifically, yeast was grown in two different liquid media and their metabolism was characterized at 8 different time-points of a 3-day period. The two media used, YPD (Yeast Peptone Dextrose) and YSC (Yeast nitrogen base Synthetic Complete), are broadly used in yeast lab routines, and results from this analysis should be of interest for improving lab methodologies involving yeast.</p>

Study to Evaluate the Effectiveness of a High-Dose Quadrivalent Influenza Vaccine (QIV-HD) Compared to a Standard-Dose Quadrivalent Influenza Vaccine (QIV-SD) in Adults 65 Years of Age and Older

ClinicalTrials.gov study NCT04137887. IPD Sharing: YES. Countries: 1. Publications: 2.

Comparative Effectiveness of Early Physical Therapy Versus Usual Care for Low Back Pain

ClinicalTrials.gov study NCT01556581. IPD Sharing: YES. Countries: 1. Publications: 5.

Comparative Effectiveness of Decision Support Strategies for Joint Replacement Surgery

ClinicalTrials.gov study NCT02729831. IPD Sharing: YES. Countries: 1. Publications: 2.

restrictedIPD-UNDECIDEDFeb 2026View details →

Assess Bronchodilator Effect and Safety of Two Doses of QVM149 Compared to a Fixed Dose Combination of Salmeterol/Fluticasone in Patients With Asthma.

ClinicalTrials.gov study NCT03063086. IPD Sharing: UNDECIDED. Countries: 6. Publications: 1.

Effect of Secukinumab on Radiographic Progression in Ankylosing Spondylitis as Compared to GP2017 (Adalimumab Biosimilar)

ClinicalTrials.gov study NCT03259074. IPD Sharing: YES. Countries: 29. Publications: 2.