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5,526 results for “information”
Pathogenic Leptospira isolated from rodents in New Orleans, Louisiana USA, and associated site information
<p>Land use change can elevate disease risk by creating conditions beneficial to species that carry zoonotic pathogens. Observations of concordant global trends in pathogen prevalence and disease incidence have engendered concerns that urbanization could increase transmission risk of some pathogens. Yet host-pathogen relationships underlying transmission risk have not been well characterized within cities, even where contact between humans and species capable of transmitting pathogens of concern occur. We addressed this deficit by testing the hypothesis that areas in cities experiencing greater population loss and infrastructure decline (i.e., counter-urbanization) can support a greater diversity of host species and a larger and more diverse pool of pathogens. We did so by characterizing pathogenic <em>Leptospira</em> infection relative to rodent host richness and abundance across a mosaic of abandonment in post-Katrina New Orleans (Louisiana, USA). We found that <em>Leptospira</em> infection loads were highest in areas that harbored higher rodent species richness. Areas with greater host co-occurrence also harbored a greater number of hosts, including the most competent hosts, indicating that <em>Leptospira </em>infection is amplified by increases in overall and relative host abundance. Evidence of shared infection among rodent hosts indicates that cross-species transmission of <em>Leptospira </em>likely increases infection at sites with greater host syntopy. Additionally, evidence that rodent co-occurrence and abundance and <em>Leptospira</em> infection load parallel abandonment suggests that counter-urbanization can elevate zoonotic disease risk within cities, particularly in underserved communities that are burdened with disproportionate concentrations of derelict properties.</p>
Les Data Lakes comme Approche d'Organisation de l'Information
<p>Dans cette présentation, nous faisons le tour des méthodes d'organisation et de stockage de l'information depuis la bibliothèque (antiquité) au tout récent <em>Data Lake</em>. </p>
Dataset for Supporting Information of the paper entitled "Folding and Bending Planar Coils for Highly Precise Soft Angle Sensing"
<p>This dataset includes all results presented in the "Supporting information" of the paper entitled "Folding and Bending Planar Coils for Highly Precise Soft Angle Sensing", published in Advanced Materials Technologies, vol.5, 2000659, 2020<br> DOI: 10.5281/zenodo.4099806, DOI: <a href="https://doi.org/10.1002/admt.202000659">10.1002/admt.202000659</a><br> URL:<br> https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fadmt.202000659&file=admt202000659-sup-0001-SuppMat.pdf</p> <p>List of data in this dataset:<br> Fig.S1-Theoretical Analysis.xlsx<br> Fig.S5-LM Coils Folding-Exp and NA.xlsx<br> Fig.S6-CoilFoldingDataARC.xlsx<br> Fig.S7-Cyclic Bending-1000 cycles.xlsx<br> Fig.S8-Cyclic Folding of FPC and LM Coils.xlsx</p> <p>All the data included in this dataset were collected and processed by Dr. Hongbo Wang.</p> <p>Contact person:<br> Dr. Hongbo Wang, ustcwhb@gmail.com</p>
Mehrabi et al. 2020. The global divide in data-driven farming. Supplementary Information.
<p>This repository contains data, data sources, and code for reproducing the results of the paper Mehrabi et al. 2020. The global divide in data-driven farming. Nature Sustainability. https://doi.org/10.1038/s41893-020-00631-0.</p> <p>There are five directories included here, listed in alphabetical order. Directory SI_A contains the script for reproducing the analysis presented in the main text of the paper. Directories SI_B to SI_E contain the scripts for creating the input data sets used in the analysis.</p> <p>This is a baseline study, that is intended to be built upon and improved as and when new data become available. For issues and suggestions, please contact zia.mehrabi@ubc.ca.</p>
Participatory Conceptual Diagrams to research small-scale farmers´ information sharing for adapting to climate change in Mozambique
<p>Data collected from focus groups discussions with local communities of 4 distrcits of Mozambique in November 2019. The data are a series of conceptual maps describing a) the farming practices improvements most needed to adapt to climate change, and b) the most useful information for enabling the selected improvements, the most effective information sharing sources - e.g. institutional actors, members of the community, technical support, etc. - and means of communication - e.g. radio, mobile phone, word-of-mouth, etc. For the second purpose, connections were drawn by the members of the community between information sources and the actions needed for climate change adaptation. Participants also assigned a weight to the connections, selecting between: strong, medium or a weak connection.</p> <p>Notes about the discussions and opinions expressed by participants, written down by the research team, are also included.</p> <p>Together with the data, PDF files describing metadata and detailed methodology followed are included.</p>
Supplementary Information for "The Peculiar Case of the Hyperthermostable Pyrimidine Nucleoside Phosphorylase from Thermus thermophilus"
<p>This is the external Supplementary Information for our publication "The Peculiar Case of the Hyperthermostable Pyrimidine Nucleoside Phosphorylase from <em>Thermus thermophilus</em>".</p> <p>The .pdf file contains the Supplementary Information: author contributions, experimental procedures and supplementary items.</p> <p>The .zip file contains the raw data and metadata for all items (supplementary and main text) and the calculations.</p> <p>The Python code used for spectral unmixing is available on this platform (10.5281/zenodo.3243376) and has been described in our previous publications (10.3390/mps2030060, 10.5281/zenodo.3333469, 10.1002/cbic.202000204, 10.5281/zenodo.3723806 ). Further applications of this method can be found in our recent article in <em>Adv. Synth. Catal.</em> (10.1002/adsc.201901230) and its supporting material (10.5281/zenodo.3568858).</p>
Planilha com artigos publicados no período de janeiro de 2000 a dezembro de 2019, no periódico Journal of Information Ethics
<p>Planilha com artigos publicados no período de janeiro de 2000 a dezembro de 2019, no periódico <em>Journal of Information Ethics (JIE) </em>a partir da base referencial <em>Library & Information Science Abstracts (LISA) </em>que abordem especificamente a temática ética da informação no campo da Ciência da Informação.</p>
Supplementary materials for "Relative Information Gain: Shannon entropy-based measure of the relative structural conservation in RNA alignments"
<p>Supplementary materials for "Relative Information Gain: Shannon entropy-based measure of the relative structural conservation in RNA alignments". These include precalculated RNA Blocks, MBRs (Matrix of Bear encoded RNA), sPSSMs (structural Position Specific Scoring Matrix), RIG (Relative Information Gain) scores, and plots calculated for 3016 Rfam 14.1 families. In particular:</p> <ul> <li><strong>alignments.zip:</strong> zipped file containing the structural alignments for each Rfam family.</li> <li><strong>RNA_Blocks.zip</strong>: zipped file containing the RNA blocks used to derive different substitution matrices.</li> <li><strong>MBRs.zip</strong>: zipped file containing the substitution matrices.</li> <li><strong>sPSSMs.zip</strong>: zipped file containing the structural Position Specific Scoring Matrices.</li> <li><strong>RIGs.zip</strong>: zipped file containing the RIG scores.</li> <li><strong>entropy.zip</strong>: zipped file containing the (rescaled) entropy.</li> <li><strong>plots.zip</strong>: zipped file containing the plots. </li> </ul> <p>All the scripts to build all these files are available at <a href="https://github.com/helmercitterich-lab/RIG">https://github.com/helmercitterich-lab/RIG</a>.</p>
Dataset: "Probabilistic Framework for Integration of Mass Spectrum and Retention Time Information in Small Molecule Identification"
<p>The SQLite database contains the pre-computed tandem mass spectra (MS2) and retention order scores used for the experiments in the publication: "<a href="https://doi.org/10.1093/bioinformatics/btaa998">Probabilistic Framework for Integration of Mass Spectrum and Retention Time Information in Small Molecule Identification</a>" by Bach et al. (2020).</p> <p>A detailed description of the database structure is given in the 'README.md' and can also be found in the <a href="https://github.com/aalto-ics-kepaco/msms_rt_score_integration/tree/master/data">code-repository associated with the publication</a>. The database layout is illustrated in the 'db_layout.png' file.</p> <p>The SQLite file 'ms_and_rt_score_DB_bach_etal_2020.db.gz' is compressed using <a href="https://en.wikipedia.org/wiki/Gzip">gzip</a>.</p>
Datasets of Twitter mentions and publications in Information Science & Library Science and Microbiology
<p>Datasets used in the study 'Identifying and characterizing social media communities: a socio-semantic network approach to altmetrics'.</p> <p><strong>Microbiology publications (mic_publiccations.tsv).</strong> Dataset of 101,206 Microbiology publications with their author keywords.</p> <p><strong>Microbiology mentions (mic_mentions.tsv).</strong> Dataset of 328,110 Twitter mentions to Microbiology publications.</p> <p><strong>Information Science & Library Science publications (lis_publications.tsv).</strong> Dataset of 8452 Information Science & Library Science publications with their author keywords.</p> <p><strong>Information Science & Library Science mentions (lis_mentions.tsv).</strong> Dataset of 35,411 Twitter mentions to Information Science & Library Science publications.</p>
Supplementary data: What millimeter-wavelength radar reflectivity reveals about snowfall: An information-centric analysis
<p>This dataset includes supplementary data used in the analyses described in Wood, N. B., and T. S. L'Ecuyer, 2020: What millimeter-wavelength radar reflectivity reveals about snowfall: An information-centric analysis. Atmospheric Measurement Techniques, doi:10.5194/amt-2020-216.</p>
Dataset: Information content of ultraviolet-reflecting color patches and visual perception of body coloration in the Tyrrhenian wall lizard Podarcis tiliguerta
<p>These are the data sets and R script corresponding to the scientific publication with the same title and authors.</p> <p>Description of these files is available in the file Note.pdf</p>
Full information on the eORCA1 grid (mesh_mask) used in IPSL-CM6A-LR configuration
<p>eORCA1.2_mesh_mask.nc : This file contains all relevant information on the eORCA1 grid used in the NEMO_v3.6_STABLE configuration of the oceanic module of the IPSL-CM6A-LR climate model. See https://www.nemo-ocean.eu/wp-content/uploads/NEMO_book.pdf for more details on the grid.</p> <p>eORCA_R1_bathy_meter_v2.2.nc: This file contains the bathymetry of the eORCA1 configuration used in IPSL-CM6A-LR.</p>
Vector sequences in early WIV SRA sequencing data of SARS-CoV-2 inform on a potential large-scale security breach at the beginning of the COVID-19 pandemic
<p>DESCRIPTION</p> <p>Sequences identified as Influenza A virus, Spodoptera frugiperda rhabdovirus and Nipah henipavirus have been previously identified within the early HiSeq 1000 and HiSeq 3000 sequencing data of SARS-CoV-2, SRR11092059,SRR11092060,SRR11092061 and SRR11092062, and were being used to support the hypothesis that a "simultaneous outbreak of multiple zoonotic viruses" have happened in the Huanan Seafood market. https://doi.org/10.31219/osf.io/s4td6</p> <p>However, a closer examination of these sequences revealed that they were not sequences of actual wild viruses, but were in stead fragments left behind from PCR products and cloning vectors harboring both cDNA clones and infectious clones of such viruses, with evidence of viral sequences being joined directly to DNA sequences of vector and non-human origin within the same short reads.</p> <p>Here are the vector sequences and PCR product-like sequences recovered from the earliest WIV SRA sequencing data of Human SARS-CoV-2 from dataset SRR11092059,SRR11092060,SRR11092061,SRR11092062.</p> <p>Sequences associated with Vectors and PCR products from 3 distinct viral species have been obtained: The 3'-end of a Nipah Henipahvirus with fusion to a Hepatitis D virus Ribozyme, a T7 terminator and a Tetracycline resistance gene, The 5'-end of the same Nipah Henipahvirus with fusion to sequences found in diverse vectors, A complete vector genome encoding the HA gene of Influenza A virus subtype H7N9 under a CMV promoter and a bgH polyA terminator, and 221 Contiguous sequences corresponding to the Spodoptera frugiperda rhabdovirus reference genome fused to sequences that were homologous to multiple Plastid sequences and Notably Mitochondrial sequences of Rodents.</p> <p>As sequences corresponding to a rescued infectious clone of a BSL-4 organism (Nipah Henipahvirus) were found in sample sequences that supposedy represents patient samples that were obtained from Hospital ICU and sequenced in a pathogen diagnosis laboratory (which is separate from the Virology Research laboratory which is implied by the context of an Infectious Clone of such an organism, evident by the 3'-HDV ribozyme and T7 terminator fused directly to the 3'-terminus of the Nipah Henipahvirus reads), The discovery of artifact-containing sequences of at least 3 different pathogen species that are phylogenetically and methodologically distinct from each other in samples that were supposedly submitted by a laboratory that is Separate from the virological research laboratories that could have hosted such clone sequences imply extensive crosstalk and cross-contamination between the various laboratories within the Wuhan Institute of Virology, which includes at least one BSL-4 laboratory with evidence of containment breach of a BSL-4 organism and it's subsequent introduction into RNA-seq samples that were processed by a laboratory of distinct and separate purposes than the basic virological research evidenced by the Infectious Clone of the Hipah Henipahvirus.</p> <p>Such a discovery therefore likely imply a major security breach happening within the Wuhan institute of Virology at the time when the first sequences of SARS-CoV-2 was sampled and sequenced, which have important implications on the origins of the SARS-CoV-2 virus itself.</p> <p>METHODS</p> <p>The metagenomic sequencing datasets, SRR11092059,SRR11092060,SRR11092061 and SRR11092062 were first analyzed using the NCBI phylogenetic analysis tool, which identified viral sequences that is not related to SARS-CoV-2 itself. These include Influenza A virus (IAV, subtype H7N9), Spodoptera frugiperda rhabdovirus and Nipah Henipahvirus.</p> <p>The datasets were then subjected to BLAST search using MEGABLAST against the reference sequences of such viruses to verify the existence of the viral sequences and determine the exact sybtype of such viruses and the closest sequences on GenBank that corresponds to the reads. There seuqences are MH926031.1 for the Spodoptera frugiperda rhabdovirus, KY199425.1 for the Influenza A virus and AY988601.1 for the Nipah Henipahvirus.</p> <p>A second round BLAST analysis with these identified sequences were then performed, which unexpectedly revealed numerous reads corresponding to Cloning vectors and non-human Mitochondrial and Plastid sequences being fused directly to the sequences of the identified viral species. Reads were then downloaded and subjected to assembly using the CAP3 sequence assembly program and the EGASSEMBLER tool. Contig sequences were then queried against the NCBI nr/nt database which unanimously identified the original sample sequences as viral sequences inserted into cloning vectors.</p> <p>The complete sequence of the Influenza A virus Haemagluttinin (HA) gene clone was obtained from SRR11092061,SRR11092062 using multiple rounds of BLAST search and sequence assembly expansion on the existing vector-virus junction contigs, and a partial sequence corresponding the 3'-end of Nipah Henipahvirus AY988601.1 fused to a 3'-HDV ribozyme, T7 terminator and a Tet resistance gene was obtained from SRR11092059. In addition, 221 Contig sequences corresponding to the Rhabdovirus MH926031.1 fused to Chloroplast sequence MN524635.1 and Rodent Mitochondrial sequence MT241668.1 have been recovered from SRR11092061.</p> <p>We then performed a BLAST search using the identified vector sequences on SRR11092059,SRR11092060,SRR11092061 and SRR11092062, which confirms the existence of these two vetor sequences in all 4 datasets.</p>
Dataset - research methodology annotation (Information Science)
<p>Datasets used for developing text mining methods for extracting research methods reported in Information Science journal articles. </p>
Rule based and information integration category learning
<p>The following dataset includes sessions from rats and humans learning and generalizing to Rule-based and Information Integration categories. Here, category exemplars are Gabor patches, which are circular stimuli that contain black and white gratings. Across exemplars, these gratings can change in their spatial frequency and orientation. For Rule-based tasks, only one stimulus dimension (i.e., spatial frequency or orientation) is category-relevant, and the other dimension varies randomly. For Information Integration tasks, both stimulus dimensions (i.e., spatial frequency and orientation) are category-relevant. On each learning trial, participants are presented with a category exemplar and must decide its category membership. Feedback guides learning. Rats are trained using a touchscreen apparatus, whereas humans are trained using a desktop computer. </p>
Supplementary Information S1 - Detailed results of the CAPRI N-LCA and S2 - Quantification of the main N budget flows in the EU25 agriculture sector of Leip, A., Billen, G., Garnier, J., Grizzetti, B., Lassaletta, L., Reis, S., Simpson, D., Sutton, M. a, de Vries, W., Weiss, F., Westhoek, H. (2015). Impacts of European livestock production: nitrogen, sulphur, phosphorus and greenhouse gas emissions, land-use, water eutrophication and biodiversity. Environ. Res. Lett. 10, 115004. doi:10.1088/1748-9326/10/11/115004
<p>Table S1-1 Quantification of GHG and Nr flow intensities [kg CO2eq (kg product)<sup>-1</sup> yr<sup>-1</sup>] or [g N (kg product)<sup>-1</sup> yr<sup>-1</sup>] with the CAPRI N-LCA model for six main livestock products (BEEF: beef, PORK: pork, EGGS: eggs, POUM: poultry meat; DAIR: milk and dairy products, SGMP: meat from sheep and goats) and six main vegetable food groups (POTA: potatoes, SUGB: sugar beet before processing, OILP: oil seeds before processing; CERR: cereals, LEGU: leguminous crops) as well as other crops (OCRP) and aggregated livestock (ANIMP) and vegetable (CROPP) food. </p> <p>Table S2-1 Quantification of the main N budget flows in the EU25 agriculture sector</p>
Analog series-based scaffolds from ChEMBL with associated activity information
<p>Reported is the activity information for the 12,294 analog series-based (ASB) scaffolds extracted from ChEMBL database. For each ASB scaffold structural and activity information for all analogs comprising the analog series is provoded. </p>
FIGURE 4. A in Description of the final instar larva of Acrogomphus jubilaris Lieftinck, 1964 (Odonata, Gomphidae), with information on the distribution of Acrogomphus in Borneo
FIGURE 4. A. jubilaris Ƌ exuvia, Garden of Eden, Gunung Mulu National Park, Sarawak and A. malayanus Ƌ exuvia, Book Village, Langkawi. A A. jubilaris Ƌ exuvia, labium ventral view; scale bar 2 mm. B A. jubilaris Ƌ exuvia, antenna dorsal view; scale bar 2 mm. C A. jubilaris Ƌ exuvia, habitus lateral view; scale bar 10 mm. D A. malayanus Ƌ exuvia, habitus lateral view; scale bar 10 mm.
FIGURE 3. A in Description of the final instar larva of Acrogomphus jubilaris Lieftinck, 1964 (Odonata, Gomphidae), with information on the distribution of Acrogomphus in Borneo
FIGURE 3. A. jubilaris Ƌ exuvia, habitus dorsal view, Garden of Eden, Gunung Mulu National Park, Sarawak., scale bar 10 mm.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.