Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
7,327
datasets available to search
ShareScore release 0.9.0
Dataset results
7,327 results for “pathways”
ANGUSII Scenarios: Pathways to 100% Renewable German Energy System
<p>The data set contains an open source energy system model based on the Open Energy Modelling Framework (oemof) for Germany. Results are calculated for different scenarios for the year 2030, 2040 and 2050.</p> <p>A documentation file can be found on <a href="https://github.com/znes/angus-scenarios/blob/3d76ee93d075c3cd83e39ee60ccc34aa13da5732/documentation/scenario-description.pdf">Github.</a></p> <p> </p>
plan4res - public dataset for case study 1 part MIM-1: time series used for multi-modal investment pathway modelling
<p>Public data set which is used within the plan4res project for performing case study 1 "Multi-modal European energy concept for achiving COP21" - Multi-modal Investment modelling (MIM) Part 1: Time series for the reference year 2015</p> <p>The related documentation is included in plan4res' deliverable D4.5 chapter 3.2 (see 10.5281/zenodo.3785010) </p> <p>The data set includes the following data:</p> <p>a) characteristic annual load profiles for large industrial heat demand for chemical, iron & steel, food & beverage and pulp & paper industries for the reference year 2015</p> <p>HOTMAPS__TD_OUT_D_CHEM__20200608T160653__20200422T120000Z__v01.csv <br> HOTMAPS__TD_OUT_D_FOOD__20200608T160724__20200422T120000Z__v01.csv <br> HOTMAPS__TD_OUT_D_IRON__20200608T160705__20200422T120000Z__v01.csv HOTMAPS__TD_OUT_D_PAPER__20200608T160715__20200422T120000Z__v01.csv </p> <p>b) characteristic demand profiles for road-side car passenger transport and availability of cars for charging while (home) parking for the reference year 2015 </p> <p>SIEMENS__TD_OUT_D_RoadCar__20200608T160627__20200401T120000Z__v01.csv SIEMENS__TD_CAP_CarPark__20200608T160637__20200401T120000Z__v01.csv </p> <p>c) load profiles for exogeneous demand of electricity for the reference year 2015. The exogenous demand includes all electricity consumptions not explicitly modeled within MIM modeling.</p> <p>HRE4__TD_OUT_ElectricityExo__20200608T160732__20200401T120000Z__v01.csv </p> <p>c) regionally resolved demand profiles for (individual) space heating and space cooling for the reference year 2015</p> <p>HRE4__TRD_CAP_Cool_2015__20200608T160051__20200401T120000Z__v01.csv <br> HRE4__TRD_CAP_HeatInd_2015__20200608T155849__20200401T120000Z__v01.csv</p> <p>d) regionally resolved generation profiles of electricity from photovoltaic, wind onshore, wind offshore, hydro run-of-river, and for heat generation from solar thermal for the reference year 2015</p> <p>NINJA__TRD_CAP_PV_2015__20200608T160440__20191104T120000Z__v01.csv <br> NINJA__TRD_CAP_WindOFF_2015__20200608T155422__20191104T120000Z__v01.csv <br> NINJA__TRD_CAP_WindON_2015__20200608T155251__20191104T120000Z__v01.csv HRE4__TRD_CAP_HydroRoR_2015__20200608T155550__20200401T120000Z__v01.csv <br> HRE4__TRD_CAP_SolarThermal_2015__20200608T155718__20200401T120000Z__v01.csv </p> <p>e) regionally resolved generation profile of electricity from wind offshore transformed in a way to represent potential capacity factors in future as stated by doi:10.2760/041705. Data based on reference year 2015</p> <p>SIEMENS__TRD_CAP_WindOFF_2040__20200608T155127__20200401T120000Z__v01.csv </p> <p>x) A list of geographical description of the zone hierarchy data used in MIM for the EU33 region set.:</p> <p>SIEMENS__ZoneHierarchy_MIM_EU33__20181231T120000Z___20200131T1200000Z__v001.csv </p> <p>Further info:</p> <p>Time series are based on historical data for the reference year 2015. </p> <p>Values are normalized over one reference year in a way that either the maximum = 1 (CAP) or the integral = 1 (OUT).</p> <p>All values are listed in arbitrary units. </p> <p>All country names are according to ISO 3166-1 alpha-2.</p>
The essential oil of Polygonum minus modulating cisplatin-induced hepatotoxicity through inflammatory and apoptotic pathway
<p>Oxidative stress, inflammation and apoptosis are thought as primary mediators of cisplatin-induced hepatotoxicity. The objective of this study was to determine the protective effect of <em>Polygonum minus</em> essential oil in cisplatin-induced hepatotoxicity. A total of forty-two male rats were randomly divided into seven groups: control, cisplatin, positive control β-caryophyllene 150 mg/kg (BCP), PmEO 100 mg/kg + cisplatin (PmEO100CP), PmEO 200 mg/kg + cisplatin (PmEO200CP), PmEO 400 mg/kg + cisplatin (PmEO400CP) and PmEO 400 mg/kg (PmEO400). Rats in the BCP, PmEO100CP, PmEO200CP, PmEO400CP and PmEO400 group received respective treatment orally for 14 consecutive days prior to cisplatin injection. All animals except for those in the control group and PmEO400 were administered with a single dose of cisplatin (10 mg/kg) intraperitoneally on day 15 and were sacrificed on day 18. PmEO100CP pretreatment protected against cisplatin-induced hepatotoxicity by decreasing CYP2E1, malondialdehyde, 8-OHdG and protein carbonyl which was accompanied by increased antioxidant status as compared to cisplatin alone group. PmEO100CP pretreatment also attenuated changes in liver inflammatory markers. PmEO100CP administration also reduced cisplatin-induced apoptosis. In conclusion, our results suggested that <em>P. minus</em> essential oil at a dose of 100 mg/kg may protect against cisplatin-induced hepatotoxicity possibly via inhibition of oxidative stress, inflammation and apoptosis.</p>
Population scenarios for U.S. states consistent with Shared Socioeconomic Pathways
<p>This is a data record of the input and output data associated with the following publication:</p> <p>Jiang, L., B.C. O'Neill, H. Zoraghein, and S. Dahlke. 2020. Population scenarios for U.S. states consistent with Shared Socioeconomic Pathways. Environmental Research Letters, <a href="https://doi.org/10.1088/1748-9326/aba5b1">https://doi.org/10.1088/1748-9326/aba5b1</a>.</p> <p>The accompanying code can be found here: </p> <p>Zoraghein, H., R. Nawrotzki, L. Jiang, and S. Dahlke (2020). IMMM-SFA/statepop: v0.1.0 (Version v0.1.0). Zenodo. <a href="https://protect2.fireeye.com/v1/url?k=dbf32d36-8746128f-dbf30723-0cc47adc5fce-abb2658d1d55b41e&q=1&e=1c8eff6c-b006-48cb-8ff3-fd95c41a8980&u=https%3A%2F%2Fprotect-us.mimecast.com%2Fs%2FbxLNCXD7VRHXoAlVcVcXsa%3Fdomain%3Dprotect2.fireeye.com">http://doi.org/10.5281/zenodo.3956703</a> </p> <p>The following detail the contents:</p> <ul> <li>SSP<ssp_number>.zip <ul> <li><state_number>_<state_abbreviation> <ul> <li><state_number>_<state_abbreviation>_In_Mig.jpg <ul> <li>output figure for in-migration change through time for the target state</li> </ul> </li> <li><state_number>_<state_abbreviation>_Net_Mig.jpg <ul> <li>output figure for net-migration change through time for the target state</li> </ul> </li> <li><state_number>_<state_abbreviation>_Out_Mig.jpg <ul> <li>output figure for out-migration change through time for the target state</li> </ul> </li> <li><state_number>_<state_abbreviation>_proj_in_mig.csv <ul> <li>projected age and gender specific number of domestic in-migration for the state over time</li> </ul> </li> <li><state_number>_<state_abbreviation>_proj_net_mig.csv <ul> <li>projected age and gender specific number of domestic net-migration for the state over time</li> </ul> </li> <li><state_number>_<state_abbreviation>_proj_out_mig.csv <ul> <li>projected age and gender specific number of domestic out-migration for the state over time</li> </ul> </li> <li><state_number>_<state_abbreviation>_proj_pop.csv <ul> <li>projected age and gender specific number of population for the state over time</li> </ul> </li> <li><state_number>_<state_abbreviation>_total_in_mig.csv <ul> <li>projected age and gender specific in-migration from other states to the current state over time</li> </ul> </li> <li><state_number>_<state_abbreviation>_total_out_mig.csv <ul> <li>projected age and gender specific out-migration from the current state to other states over time</li> </ul> </li> <li><state_number>_<state_abbreviation>.jpg <ul> <li>figure for projected change of population for the state</li> </ul> </li> </ul> </li> </ul> </li> <li>State_inputs.zip <ul> <li><state_number>_<state_abbreviation> <ul> <li><state_number>_<state_abbreviation>_in_mig.csv <ul> <li>a table containing gender- and age-specific migration rates from all states to the current state at the base year.</li> </ul> </li> <li><state_number>_<state_abbreviation>_out_mig.csv <ul> <li>a table containing gender- and age-specific migration rates from the current state to all other states at the base year.</li> </ul> </li> <li>basePop.csv <ul> <li>a table containing gender- and age-specific counts of people in the current state at the base year (2010).</li> </ul> </li> <li>Constant_rate.csv <ul> <li>a table that constructs a constant scenario for fertility, mortality (life expectancy), urbanization level (required if we differentiate urban and rural), sex ratio at birth and net estimates of international migrants for the current state. The table is from 2010 to 2100 at 5 year intervals used for scenario building. The presented scenario, for instance, keeps everything constant at its historical record estimated from the data.</li> </ul> </li> <li>fertility.csv <ul> <li>a table containing age-specific fertility rates for the current state at the base year.</li> </ul> </li> <li>intMig.csv <ul> <li>a table containing gender- and age-specific proportions of international migrants to the current state at the base year.</li> </ul> </li> <li>mortality.csv <ul> <li>a table containing gender- and age-specific life expectancy and mortality rates for the current state at the base year (life table).</li> </ul> </li> </ul> </li> </ul> </li> </ul> <p> </p>
Data from: A chromosomal-scale genome assembly of Tectona grandis reveals the importance of tandem gene duplication and enables discovery of genes in natural product biosynthetic pathways
Background: Teak, a member of the Lamiaceae family, produces one of the most expensive hardwoods in the world. High demand coupled with deforestation have caused a decrease in natural teak forests, and future supplies will be reliant on teak plantations. Hence, selection of teak tree varieties for clonal propagation with superior growth performance is of great importance, and access to high-quality genetic and genomic resources can accelerate the selection process by identifying genes underlying desired traits. Findings: To facilitate teak research and variety improvement, we generated a highly contiguous, chromosomal-scale genome assembly using high-coverage PacBio long reads coupled with high-throughput chromatin conformation capture. Of the 18 teak chromosomes, we generated 17 near-complete pseudomolecules with one chromosome present as two chromosome arm scaffolds. Genome annotation yielded 31,168 genes encoding 46,826 gene models, of which, 39,930 and 41,155 had Pfam domain and expression evidence, respectively. We identified 14 clusters of tandem-duplicated terpene synthases (TPSs), genes central to the biosynthesis of terpenes which are involved in plant defense and pollinator attraction. Transcriptome analysis revealed 10 TPSs highly expressed in woody tissues, of which, 8 were in tandem, revealing the importance of resolving tandemly duplicated genes and the quality of the assembly and annotation. We also validated the enzymatic activity of four TPSs to demonstrate the function of key TPSs. Conclusions: In summary, this high-quality chromosomal-scale assembly and functional annotation of the teak genome will facilitate the discovery of candidate genes related to traits critical for sustainable production of teak and for anti-insecticidal natural products.
Supplementary Materials for "The Effects of Chromosome Doubling on Morphology, Salinity Tolerance, Essential Oil Composition, and Gene Expression of Biosynthesis Pathway in Peppermint (Mentha piperita L.)"
<p>Shandong Province Key Laboratory of Applied Microbiology, Ecology Institute, Qilu University of Technology (Shandong Academy of Sciences), Jinan 250103, China; zhaozjfrances@163.com (Z.Z.); yanli_wei@163.com (Y.W.); menshenlai@163.com (K.Y.); sdkinghills@sina.com (B.L.); liling33802400@163.com (L.L.); yanght@sdas.org (H.Y)</p>
STM, locomotion and survival raw data for: A neural m6A/Ythdf pathway is required for learning and memory in Drosophila
<p>The files contain raw and summarized data files for the STM, locomotion and survival experiments published in the manuscript entitled " A neural m6A/Ythdf pathway is required for learning and memory in Drosophila". Instructions on how to process data and further information is found in the "summary" file.<br> </p>
Figure 7 in Agistemus collyerae (Acari: Trombidiformes: Stigmaeidae) in South Africa: first record, introduction pathways and a re-description including additional life stages
Figure 7 Male Agistemus collyerae: A – leg I; B – leg II.
Figure 2 in Agistemus collyerae (Acari: Trombidiformes: Stigmaeidae) in South Africa: first record, introduction pathways and a re-description including additional life stages
Figure 2 Female Agistemus collyerae: A – dorsum; B – dorsal setae.
Figure 1 in Agistemus collyerae (Acari: Trombidiformes: Stigmaeidae) in South Africa: first record, introduction pathways and a re-description including additional life stages
Figure 1 Female Agistemus collyerae: Dorsal view (photo).
Figure 8 in Agistemus collyerae (Acari: Trombidiformes: Stigmaeidae) in South Africa: first record, introduction pathways and a re-description including additional life stages
Figure 8 Male Agistemus collyerae: A – leg III; B – leg IV.
Figure 4 in Agistemus collyerae (Acari: Trombidiformes: Stigmaeidae) in South Africa: first record, introduction pathways and a re-description including additional life stages
Figure 4 Female Agistemus collyerae: A – leg I; B – leg II.
Figure 6 in Agistemus collyerae (Acari: Trombidiformes: Stigmaeidae) in South Africa: first record, introduction pathways and a re-description including additional life stages
Figure 6 Male Agistemus collyerae: A – dorsum; B – venter; C – gnathosoma.
Figure 3 in Agistemus collyerae (Acari: Trombidiformes: Stigmaeidae) in South Africa: first record, introduction pathways and a re-description including additional life stages
Figure 3 Female Agistemus collyerae: A – venter; B – palp; C – subcapitulum.
Appendix 5 to "The Status of Biological Invasions and their Management in South Africa in 2019"—Pathways change tracker
<p>For more details see: http://iasreport.sanbi.org.za</p> <p>SANBI and CIB 2020. Appendix 5 to "The Status of Biological Invasions and their Management in South Africa in 2019"—Pathways change tracker. South African National Biodiversity Institute, Kirstenbosch and DSI-NRF Centre of Excellence for Invasion Biology, Stellenbosch. http://dx.doi.org/10.5281/zenodo.3947799</p>
Independent losses of the Hypoxia-Inducible Factor (HIF) pathway within Crustacea
<p>Metazoans respond to hypoxic stress via the Hypoxia Inducible Factor (HIF) pathway, a mechanism thought to be extremely conserved due to its importance in monitoring cellular oxygen levels and regulating responses to hypoxia. However, recent work revealed that key members of the HIF pathway have been lost in specific lineages (a tardigrade and a copepod), suggesting alternative mechanisms have evolved but are still undescribed. Using genomic and transcriptomic data from 70 different species across 12 major crustacean groups, we assessed the degree to which the gene <i>HIF</i><i>a</i>, the master regulator of the HIF pathway, was conserved. Mining of protein domains, followed by phylogenetic analyses of gene families, uncovered group-level losses of <i>HIF</i><i>a</i>, including one across three orders within Cirripedia, and in three orders within Copepoda. For these groups, additional assessment showed losses of HIF repression machinery (EGLN, VHL). These results suggest the existence of alternative mechanisms for cellular response to low oxygen, and highlight these taxa as models useful for probing these evolutionary outcomes.</p>
Data from: Transmission pathways and spillover of an erythrocytic bacterial pathogen from domestic cats to wild felids
Many pathogens infect multiple hosts, and spillover from domestic to wild species poses a significant risk for spread of diseases that threaten wildlife and humans. Documentation of cross-species transmission, and unravelling the mechanisms that drive it, remains a challenge. Focusing on co-occurring domestic and wild felids, we evaluate possible transmission mechanisms and evidence of spillover of 'Candidatus Mycoplasma haemominutum' (CMhm), an erythrocytic bacterial parasite of cats. We examine transmission and possibility of spillover by analysing CMhm prevalence, modeling possible transmission pathways, deducing genotypes of CMhm pathogens infecting felid hosts based on sequences of the bacterial 16S rRNA gene, and conducting phylogenetic analyses with ancestral state reconstruction to identify likely cross-species transmission events. Model selection analyses suggest both indirect (i.e., spread via vectors) and direct (i.e., via inter-specific predation) pathways may play a role in CMhm transmission. Phylogenetic analyses indicate that transmission of CMhm appears to predominate within host species, with occasional spillover, at unknown frequency, between species. These analyses are consistent with transmission by predation of smaller cats by larger species, with subsequent within-species persistence after spillover. Our results implicate domestic cats as a source of global dispersal and spillover to wild felids via predation. We contribute to the emerging documentation of predation as a common means of pathogen spillover from domestic to wild cats, including pathogens of global conservation significance. These findings suggest risks for top predators as bioaccumulators of pathogens from subordinate species.
The oxytocin-prostaglandins pathways in the horse (Equus caballus) placenta during pregnancy, physiological parturition, and parturition with fetal membrane retention
<p>Despite their importance in mammalian reproduction, substances in the oxytocin-prostaglandins pathways have not been investigated in the horse placenta during most of pregnancy and parturition. Therefore, we quantified placental content of oxytocin (OXT), oxytocin receptor (OXTR), and prostaglandin E2 and F2 alpha during days 90–240 of pregnancy (PREG), physiological parturition (PHYS), and parturition with fetal membrane retention (FMR) in heavy draft horses (PREG = 13, PHYS = 11, FMR = 10). We also quantified <i>OXTR</i> and<i> </i>prostaglandin endoperoxide synthase-2 (<i>PTGS2</i>) mRNA expression and determined the immunolocalization of OXT, OXTR, and PTGS2. For relative quantification of OXT and OXTR, we used western blotting with densitometry. To quantify the prostaglandins, we used enzyme immunoassays. For relative quantification of <i>OXTR</i> and <i>PTGS2</i>, we used RT-qPCR. For immunolocalization of OXT, OXTR, and PTGS2, we used immunohistochemistry. We found that OXT was present in cells of the allantochorion and endometrium in all groups. <i>PTGS2</i> expression in the allantochorion was 14.7-fold lower in FMR than in PHYS (<i>p</i> = 0.007). These results suggest that OXT is synthesized in the horse placenta. As PTGS2 synthesis is induced by inflammation, they also suggest that FMR in heavy draft horses may be associated with dysregulation of inflammatory processes.</p>
Identification of a Pathway for Electron Uptake in Shewanella oneidensis
<p>Data for figures for "Identification of a Pathway for Electron Uptake in <em>Shewanella oneidensis</em>"</p> <p><strong>Abstract</strong></p> <p>Extracellular electron transfer (EET) could enable electron uptake into microbial metabolism for the synthesis of complex, energy dense organic molecules from CO<sub>2 </sub>and renewable electricity<sup>1-6</sup><sup> </sup>. Theoretically EET could do this with an efficiency comparable to H<sub>2</sub>-oxidation<sup>7,8</sup> but without the need for a volatile intermediate and the problems it causes for scale up<sup>9</sup>. However, significant gaps remain in understanding the mechanism and genetics of electron uptake. For example, studies of electron uptake in electroactive microbes have shown a role for the Mtr EET complex in the electroactive microbe <em>Shewanella oneidensis</em> MR-1<sup>10-14</sup>, though there is substantial variation in the magnitude of effect deletion of these genes has depending on the terminal electron acceptor used. This speaks to the potential for novel and/or differentially utilized genes involved in electron uptake. To address this, we screened gene disruption mutants for 3,667 genes, representing ≈ 99% of all non-essential genes, from the <em>S. oneidensis</em>whole genome knockout collection using a redox dye oxidation assay. Confirmation of electron uptake using electrochemical testing allowed us to identify five genes from <em>S.</em><em> oneidensis</em> that are indispensable for electron uptake from a cathode. Knockout of each gene eliminates extracellular electron uptake, yet in four of the five cases produces no significant defect in electron donation to an anode. This result highlights both distinct electron uptake components and an electronic connection between aerobic and anaerobic electron transport chains that allow electrons from the reversible EET machinery to be coupled to different respiratory processes in <em>S. oneidensis</em>. Homologs to these genes across many different genera suggesting that electron uptake by EET coupled to respiration could be widespread. These gene discoveries provide a foundation for: studying this phenotype in exotic metal-oxidizing microbes, genetic optimization of electron uptake in <em>S. oneidensis</em>; and genetically engineering electron uptake into a highly tractable host like <em>E. coli </em>to complement recent advances in synthetic CO<sub>2</sub> fixation<sup>15</sup>.</p>
Mouse and Human Co-expression maps and supplementary material for: "A comparison of human and mouse gene co-expression networks reveals conservation and divergence at the tissue, pathway and disease levels"
<p>Co-expression maps of the human and mouse species derived from microarray data for the first release of the GeneFriend tool.</p> <p>The two co-expression maps have been compared in order to discern similarities and differences between the two species. The results have been described in the manuscript titled: "A comparison of human and mouse gene co-expression networks reveals conservation and divergence at the tissue, pathway and disease levels".</p> <p>The supplementary material of the manuscript have also been included in this repository.</p> <p> </p>
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.