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12,662 results for “linking”
Fig.1 in Missing geographic link: minute lady beetles (Coleoptera: Coccinellidae: Microweiseinae) from Mount Wilhelm, New Guinea
Fig.1. Habitus of Scymnomorphus species from Mt. Wilhelm, New Guinea. A–F – S. bimaculatus sp. nov.; G–I – S. kausi sp. nov.; J–L – S. papuensis sp. nov. A, D, G, J – dorsal view; B, E, H, K – lateral view; C, F, I, L – frontal view.
Fig. 5 in Missing geographic link: minute lady beetles (Coleoptera: Coccinellidae: Microweiseinae) from Mount Wilhelm, New Guinea
Fig. 5. Morphology of Scymnomorphus species. A–D, F – S. kausi sp. nov.: A – habitus, dorsal; B – ventral view; C – magnification of metaventral punctures; D – glandular openings on abdominal ventrite 5 in male; F – head, anterior view. E – S. bimaculatus sp. nov., glandular opening on abdominal ventrite 5 in male.
The potential of sector coupling in future European energy systems soft linking between the Dispa-SET and JRC-EU-TIMES models - Dataset
<p>Supporting dataset and Dispa-SET version used within "The potential of sector coupling in future European energy systems soft linking between the Dispa-SET and JRC-EU-TIMES models" paper.</p>
Dataset and link to dataset related to article "MicroRNA-127-3p controls murine hematopoietic stem cell maintenance by limiting differentiation."
<p>The balance between self-renewal and differentiation is crucial to ensure the homeostasis of the hematopoietic system, and is a hallmark of hematopoietic stem cells. However, the underlying molecular pathways, including the role of micro-RNA, are not completely understood. To assess the contribution of micro-RNA, we performed micro-RNA profiling of hematopoietic stem cells and their immediate downstream progeny multi-potent progenitors from wild-type control and Pbx1-conditional knockout mice, whose stem cells display a profound self-renewal defect. Unsupervised hierarchical cluster analysis separated stem cells from multi-potent progenitors, suggesting that micro-RNA might regulate the first transition step in the adult hematopoietic development. Notably, Pbx1-deficient and wild-type cells clustered separately, linking micro-RNAs to self-renewal impairment. Differential expression analysis of micro-RNA in the physiological stem cell-to-multi-potent progenitor transition and in Pbx1-deficient stem cells compared to control stem cells revealed miR-127-3p as the most differentially expressed. Furthermore, miR-127-3p was strongly stem cell-specific, being quickly down-regulated upon differentiation and not re-expressed further downstream in the bone marrow hematopoietic hierarchy. Inhibition of miR-127-3p function in Lineage-negative cells, achieved through a lentiviral-sponge vector, led to severe stem cell depletion, as assessed with serial transplantation assays. miR-127-3p-sponged stem cells displayed accelerated differentiation, which was uncoupled from proliferation, accounting for the observed stem cell reduction. miR-127-3p overexpression in Lineage-negative cells did not alter stem cell pool size, but gave rise to lymphopenia, likely due to lack of miR-127-3p physiological downregulation beyond the stem cell stage. Thus, tight regulation of miR-127-3p is crucial to preserve the self-renewing stem cell pool and homeostasis of the hematopoietic system.</p> <p> </p> <p>Raw data relative to Figure 1 have been deposited in NCBI's Gene Expression Omnibus and are accessible through GEO Series accession number GSE113062, <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE113062">https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE113062</a></p>
Link to dataset related to article "Development, application and computational analysis of high-dimensional fluorescent antibody panels for single-cell flow cytometry"
<p>The interrogation of single cells is revolutionizing biology, especially our understanding of the immune system. Flow cytometry is still one of the most versatile and high-throughput approaches for single-cell analysis, and its capability has been recently extended to detect up to 28 colors, thus approaching the utility of cytometry by time of flight (CyTOF). However, flow cytometry suffers from autofluorescence and spreading error (SE) generated by errors in the measurement of photons mainly at red and far-red wavelengths, which limit barcoding and the detection of dim markers. Consequently, development of 28-color fluorescent antibody panels for flow cytometry is laborious and time consuming. Here, we describe the steps that are required to successfully achieve 28-color measurement capability. To do this, we provide a reference map of the fluorescence spreading errors in the 28-color space to simplify panel design and predict the success of fluorescent antibody combinations. Finally, we provide detailed instructions for the computational analysis of such complex data by existing, popular algorithms (PhenoGraph and FlowSOM). We exemplify our approach by designing a high-dimensional panel to characterize the immune system, but we anticipate that our approach can be used to design any high-dimensional flow cytometry panel of choice. The full protocol takes a few days to complete, depending on the time spent on panel design and data analysis.</p> <p> </p> <p> </p> <p>link related to dataset: https://flowrepository.org/id/FR-FCM-ZYV3</p>
Linked COVID-19 Data: Ontology
<p>Linked COVID-19 Data Ontology</p> <p>maintained at</p> <p><a href="https://github.com/Research-Squirrel-Engineers/COVID-19">https://github.com/Research-Squirrel-Engineers/COVID-19</a></p> <p>used in datasets</p> <ul> <li><a href="https://doi.org/10.5281/zenodo.3757283">10.5281/zenodo.3757283</a></li> <li><a href="https://doi.org/10.5281/zenodo.3757279">10.5281/zenodo.3757279</a></li> </ul>
SPARQLing Geodesy for Cultural Heritage – New Opportunities for Publishing and Analysing Volunteered Linked (Geo-)Data
<p><strong>SUMMARY</strong></p> <p>Geodesists are working in Industry 4.0 and Spatial Information Management by using cross linked machines, people and data. Moreover, open source software, open geodata and open access are becoming increasingly important. As part of the Semantic Web, Linked Open Data (LOD) must be created and published in order to provide free open geodata in interoperable formats. With this semantically structured and standardised data it is easy to implement tools for GIS applications e.g. QGIS. In these days, the world’s Cultural Heritage (CH) is being destroyed as a result of wars, sea-level rise, floods and other natural disasters by climate change. Several transnational initiatives try to preserve our CH via digitisation initiatives. As best practice for preserving CH data serves the Ogi Ogam Project with the aim to show an easy volunteered approach to modelling Irish `Ogam Stones` containing Ogham inscriptions in Wikidata and interlinking them with spatial information in OpenStreetMap and (geo)resources on the web.</p> <p><strong>ZUSAMMENFASSUNG</strong> </p> <p>Geodäten arbeiten in der Industrie 4.0 mit vernetzten Maschinen, Menschen und Daten. Zudem werden die Themen Open Source Software, offene Geodaten und Open Access immer wichtiger. Linked Open Data (LOD) müssen erstellt und veröffentlicht werden, um so freie und offene Geodaten in interoperablen Formaten als Teil des Semantic Web zur Verfügung zu stellen. Mit diesen semantisch strukturierten und standardisierten Daten ist es einfach Tools für GIS Applikationen, z.B. QGIS, zu erstellen. Zurzeit werden Kulturgüter (CH) der Welt durch Kriege, Meeresspiegelanstieg, Überflutungen und andere Naturkatastrophen, die durch den Klimawandel verursacht wurden, zerstört. Einige transnationale Initiativen versuchen daher die Kulturgüter durch Digitalisierungs-Initiativen zu erhalten. Als Beispiel dient hier die Digitalisierung im Ogi Ogham Projekt, das zum Ziel hat, einen einfachen auf Freiwilligenbasis fußenden Ansatz zu verfolgen, der irische `Ogham Steine` und deren Ogham Inschriften in Wikidata modelliert und diese mit Geodaten aus OpenStreetMap und deren Geodaten im Web referenziert.</p>
Figure 3. D in Neotypification of Drawida hattamimizu Hatai, 1930 (Annelida, Oligochaeta, Megadrili, Moniligastridae) as a model linking mtDNA (COI) sequences to an earthworm type, with a response to the 'Can of Worms' theory of cryptic species
Figure 3. D. hattamimizu detailed internal anatomy showing the disputed paired nephridial funnels ("n.m.") sketched for only three of the nephridia (after Hatai, 1930: fig. 4).
Selenoprotein N is an endoplasmic reticulum calcium sensor that links luminal calcium levels to a redox activity
<p>Data files for Manuscript "Selenoprotein N is an endoplasmic reticulum calcium sensor that links luminal calcium levels to a redox activity" by Chernorudskiy et al., 2020</p>
Linking potential greenhouse gas and nitric oxide fluxes to soil microbial communities in incubation experiments with soil from the SAFE landscape
<b>Description: </b><p>Controlled lab experiment to measure potential GHG emissions and associated parameters from SAFE soil. Soil taken Nov 2016, lab experiment carried out Apr-May 2017. Day 0 is before fertilisation, day 1 application of NH4NO3 solution to simulate N deposition of approx. 5 kg N ha-1 y-1 . Day 15 for (OP2,OP7 and RR) application of NH4NO3 solution to simulate N deposition of approx 50 kg N ha-1 y-1.</p><p><b>Project: </b>This dataset was collected as part of the following SAFE research project: <a href="https://www.safeproject.net/projects/project_view/126"><b>Characterising soil microbial communities and measuring associated biogeochemical fluxes</b></a></p><p><b>Funding: </b>These data were collected as part of research funded by: </p><ul><li>NERC HMTF (Research Programme, (NE/K016091/1), <a href=" http://lombok.nerc-hmtf.info/"> http://lombok.nerc-hmtf.info/</a>)</li></ul><p>This dataset is released under the CC-BY 4.0 licence, requiring that you cite the dataset in any outputs, but has the additional condition that you acknowledge the contribution of these funders in any outputs.</p><p></p><p><b>Permits: </b>These data were collected under permit from the following authorities:</p><ul><li>Sabah Biodiversity Centre (Research licence JKM/MBS.1000-2/3 JLD.2 (115))</li></ul><p></p><p><b>XML metadata: </b>GEMINI compliant metadata for this dataset is available <a href="https://www.safeproject.net/datasets/xml_metadata?id=3897394">here</a></p><p><b>Files: </b>This consists of 1 file: Lab_experiment_Melissa_corrected.xlsx</p><p><b>Lab_experiment_Melissa_corrected.xlsx</b></p><p>This file contains dataset metadata and 2 data tables:</p><ol><li><p><b>parameters_repeated_measures</b> (described in worksheet parameters_repeated_measures)</p><p>Description: soil characteristics</p><p>Number of fields: 16</p><p>Number of data rows: 207</p><p>Fields: </p><ul><li><b>core_id</b>: Location measurement was taken (Field type: id)</li><li><b>site</b>: Location measurement was taken (Field type: location)</li><li><b>landuse</b>: Land use of location (Field type: categorical)</li><li><b>day_of_exp</b>: day number (Field type: numeric)</li><li><b>flux_CH4</b>: Soil CH4 flux (Field type: numeric)</li><li><b>flux_CO2</b>: Soil CO2 flux (Field type: numeric)</li><li><b>flux_N2O-N</b>: Soil N2O flux (Field type: numeric)</li><li><b>flux_NO</b>: Soil NO flux (Field type: numeric)</li><li><b>NH4-N</b>: Soil NH4 concentration (Field type: numeric)</li><li><b>NO3-N</b>: Soil NO3 concentration (Field type: numeric)</li><li><b>soil_moisture</b>: Soil moisture around the flux chamber (Field type: numeric)</li><li><b>archaeal amoA</b>: Gene transcript abundance (Field type: numeric)</li><li><b>Proteobacteria_nirS</b>: Gene transcript abundance (Field type: numeric)</li><li><b>AniA_nirK</b>: Gene transcript abundance (Field type: numeric)</li><li><b>nosZ-I</b>: Gene transcript abundance (Field type: numeric)</li><li><b>nosZ-II</b>: Gene transcript abundance (Field type: numeric)</li></ul></li><li><p><b>parameters_one_off</b> (described in worksheet parameters_one_off)</p><p>Description: soil pH and density</p><p>Number of fields: 5</p><p>Number of data rows: 18</p><p>Fields: </p><ul><li><b>core id</b>: Location measurement was taken (Field type: id)</li><li><b>site</b>: Location measurement was taken (Field type: location)</li><li><b>landuse</b>: Land use of location (Field type: categorical)</li><li><b>pH</b>: Soil pH (Field type: numeric)</li><li><b>bulk_density</b>: dry weight of soil (Field type: numeric)</li></ul></li></ol><p><b>Date range: </b>2016-11-01 to 2017-05-30</p><p><b>Latitudinal extent: </b>4.5000 to 5.0700</p><p><b>Longitudinal extent: </b>116.7500 to 117.8200</p>
Data for "Excess forest mortality is consistently linked to drought across Europe"
<p>All data to reproduce the analysis of a paper on excess forest mortality and how it is related to drought. Code available under: https://github.com/corneliussenf/DroughtForestMortalityEurope</p>
Figure 8 from: Steinbeck C, Koepler O, Bach F, Herres-Pawlis S, Jung N, Liermann JC, Neumann S, Razum M, Baldauf C, Biedermann F, Bocklitz TW, Boehm F, Broda F, Czodrowski P, Engel T, Hicks MG, Kast SM, Kettner C, Koch W, Lanza G, Link A, Mata RA, Nagel WE, Porzel A, Schlörer N, Schulze T, Weinig H-G, Wenzel W, Wessjohann LA, Wulle S (2020) NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany. Research Ideas and Outcomes 6: e55852. https://doi.org/10.3897/rio.6.e55852
Figure 8 Components of TA2, Smart Lab, and connection to TA3: Seamless data transfer from devices via the ELN to repositories. Grey panels: modular software plugins, orange panels: modular software plugins for ELN and repositories, blue panels: software developed for the ELN. OC, IC, PC, PolyCC and AC represent the modules of the subdisciplines to be developed (see list of abbreviations in the last section of the Grant Proposal and the table to it).
Figure 7 from: Steinbeck C, Koepler O, Bach F, Herres-Pawlis S, Jung N, Liermann JC, Neumann S, Razum M, Baldauf C, Biedermann F, Bocklitz TW, Boehm F, Broda F, Czodrowski P, Engel T, Hicks MG, Kast SM, Kettner C, Koch W, Lanza G, Link A, Mata RA, Nagel WE, Porzel A, Schlörer N, Schulze T, Weinig H-G, Wenzel W, Wessjohann LA, Wulle S (2020) NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany. Research Ideas and Outcomes 6: e55852. https://doi.org/10.3897/rio.6.e55852
Figure 7 Existing services forming the nucleus of the envisioned federation of repositories as part of the NFDI4Chem infrastructure.
Figure 11 from: Steinbeck C, Koepler O, Bach F, Herres-Pawlis S, Jung N, Liermann JC, Neumann S, Razum M, Baldauf C, Biedermann F, Bocklitz TW, Boehm F, Broda F, Czodrowski P, Engel T, Hicks MG, Kast SM, Kettner C, Koch W, Lanza G, Link A, Mata RA, Nagel WE, Porzel A, Schlörer N, Schulze T, Weinig H-G, Wenzel W, Wessjohann LA, Wulle S (2020) NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany. Research Ideas and Outcomes 6: e55852. https://doi.org/10.3897/rio.6.e55852
Figure 11 TA6 will manage the synergies and interfaces to other NFDI consortia and the NFDI as a whole. It will ensure that cross-cutting topics such as NFDI-wide services are properly addressed and their results incorporated into NFDI4Chem.
Figure 10 from: Steinbeck C, Koepler O, Bach F, Herres-Pawlis S, Jung N, Liermann JC, Neumann S, Razum M, Baldauf C, Biedermann F, Bocklitz TW, Boehm F, Broda F, Czodrowski P, Engel T, Hicks MG, Kast SM, Kettner C, Koch W, Lanza G, Link A, Mata RA, Nagel WE, Porzel A, Schlörer N, Schulze T, Weinig H-G, Wenzel W, Wessjohann LA, Wulle S (2020) NFDI4Chem - Towards a National Research Data Infrastructure for Chemistry in Germany. Research Ideas and Outcomes 6: e55852. https://doi.org/10.3897/rio.6.e55852
Figure 10 The cultural change in chemical RDM is supported through training and community involvement in TA5 as well as by the NFDI4Chem infrastructure.
SNR of THz links (300GHz and 500GHz)
<p>SNRs of THz links with the following specifications.</p> <p>Carrier frequency: 300 GHz or 500 GHz </p> <p>Antenna gain: 50 dBi (both for the transmitter and receiver). </p> <p>Transmission power: 20 dBm.</p> <p>Noise floor: Thermal noise of 288.15 K .</p> <p>Bandwidth: 2GHz or 100GHz</p> <p>Other parameters are based on the following ITU-R recommendations.</p> <p>[1] Recommendation ITU-R P.676-11, Attenuation by atmospheric gases and related effects</p> <p>[2] Recommendation ITU-R P.835-5, Reference Standard Atmospheres</p> <p>[3] Recommendation ITU-R F.699-8, Reference radiation patterns for fixed wireless system antennas for use in coordination studies and interference assessment in the frequency range from 100 MHz to 86 GHz</p> <p>[4] Recommendation ITU-R P.838-3, Specific attenuation model for rain for use in prediction methods.</p> <p> </p>
Soil microbial legacy drives crop diversity advantage: linking ecological plant-soil feedback with agricultural intercropping
<ol> <li>Although the importance of the soil microbiome in mediating plant community structures and functions has been increasingly emphasized in ecological studies, the biological processes driving crop diversity overyielding remain unexplained in agriculture. Based on the plant-soil feedback (PSF) theory and method, we quantified how much soil microbes contributed to intercropping overyielding and detected which microbial groups mediated this effect.</li> <li>Soils were collected as inocula and sequenced from a unique 10-year field experiment, consisting of monoculture, intercropping and rotation planted with wheat (<i>Triticum aestivum</i>), maize (<i>Zea mays</i>) or faba bean (<i>Vicia faba</i>). A PSF study was conducted to test microbial effects on three crops' growth in monoculture or intercropping.</li> <li>In wheat & faba bean (W&F) and maize & faba bean (M&F) systems, soil microbes drove intercropping overyielding compared to monoculture, with 28-51% of the overyielding contributed by microbial legacies. The overyielding effects resulted from negative PSFs in both systems, as crops, in particular faba bean grew better in soils conditioned by other crops than itself. Moreover, faba bean grew better in soils from intercropping or rotation than from the average of monocultures, indicating a strong positive legacy effect of multispecies cropping systems. However, with positive PSF and negative legacy benefit effect of intercropping/rotation, we did not observe significant overyielding in the W&M system.</li> <li>With more bacterial and fungal dissimilarities by metabarcoding in heterospecific than its own soil, the better it improved faba bean growth. More detailed analysis showed faba bean monoculture soil accumulated more putative pathogens with higher <i>Fusarium</i> relative abundance and more <i>Fusarium oxysporum</i> gene copies by qPCR, while in heterspecific soils, there was less pathogenetic effects when cereals were engaged. Further analysis in maize/faba bean intercropping also showed an increase of rhizobia relative abundance.</li> <li> <i>Synthesis and applications</i>. Our results demonstrate a soil microbiome-mediated advantage in intercropping through suppression of the negative PSF of pathogens and increasing beneficial microbes. As microbial mediation of overyielding is context-dependent, we conclude that the dynamics of both beneficial and pathogenic microbes should be considered in designing cropping systems for sustainable agriculture, particularly including combinations of legumes and cereals.</li> </ol>
Figure 4 in Temporal patterns of the calanoid copepod community in Veliko Jezero, an isolated marine lake (South Adriatic Sea): links to a larger-scale climate changes
Figure 4. Mean Margalef's species richness and Shannon–Wiener diversity index values per year; 90% confidence intervals are shown.
Figure 3 in Temporal patterns of the calanoid copepod community in Veliko Jezero, an isolated marine lake (South Adriatic Sea): links to a larger-scale climate changes
Figure 3. Seasonal and inter-annual patterns of total calanoid abundance (individuals per m3) (left scale and bars) and their contribution (%) to total mesozooplankton abundance (right scale and line) over the study period.
Figure 2 in Temporal patterns of the calanoid copepod community in Veliko Jezero, an isolated marine lake (South Adriatic Sea): links to a larger-scale climate changes
Figure 2. Seasonal and inter-annual patterns of hydrographic parameters (temperature and salinity) over the study period.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
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DANDI Archive for NWB datasets
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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.