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.
1,923
datasets available to search
ShareScore release 0.9.0
Dataset results
1,923 results for “compounds”
Human RAD54 inhibitor screen: summary of 158 compounds identified as 'hits'
Open the record for dataset details and reuse information.
Compound Interest: Discussing the EU Open Screen Project at the MDC
<p><strong>Episode Summary</strong></p> <p>In this episode we talk to Dr. Jens Peter von Kries and Dr Katja Herzog from the Max-Delbrück-Center for Molecular Medicine (MDC) about their work on the open access technology platform EU Open Screen Project. </p> <p><strong>Episode Links</strong></p> <p><a href="https://www.mdc-berlin.de/screening-unit">EU Open Screen MDC</a></p> <p><a href="https://www.eu-openscreen.eu/">EU Open Screen </a></p> <p><strong>Quotes</strong></p> <p>"From bench to bedside, this really shows that from academia there is really a chance to help people in the clinics"</p>
Dependence of longitudinal and quadratic magnetooptic Kerr effect of Co2MnSi Heusler compound on annealing temperature
<p>Set of figures in .pdf format , showing change of longitudinal and quadratic magnetooptic Kerr effect upon annealing. in spectral range 0.8 - 5.5 eV. Blue dots are the experimental data, red line is the linear fit to the data. This dataset is discussed in the article: <em>Scaling of quadratic and linear magnetooptic Kerr effect spectra with L2<sub>1 </sub>ordering of Co<sub>2</sub>MnSi Heusler compound</em></p>
Longitudinal and quadratic magnetooptic Kerr effect spectra of Co2MnSi Heusler compound
<p>Longitudinal and quadratic magnetooptic Kerr effect spectra of Co<sub>2</sub>MnSi Heusler compound sample series in spectral range 0.8 - 5.5 eV. The dataset contain measurement of Kerr rotation and Kerr ellipticity alike. Samples in the sample set are annealed at 300C, 350C, 400C, 450C, 475C and 500C, respectively. This dataset is discussed in the article: <em>Scaling of quadratic and linear magnetooptic Kerr effect spectra with L2<sub>1 </sub>ordering of Co<sub>2</sub>MnSi Heusler compound</em></p>
FIGURE 6. Compound microscopic images showing detailed morphology for L in A new species of the genus Loricula Curtis from central Honshu, Japan (Heteroptera: Microphysidae)
FIGURE 6. Compound microscopic images showing detailed morphology for L. mikawa sp. nov., female. A. Head and pronotum, dorsal view. B. Antenna. C. Labium. D. Thorax, ventral surface. E. Forewing base. F. Abdomen, ventral view. G. Apodemal process. H. Genital segments, ventral view. I. Three eggs found in abdomen (F).
Betlada, Nilgiri Hills (Tamil Nadu). Two hero-stones embedded in a modern compound
<p>Former orthostats of disassembled dolmens.</p> <p>Date of record: 2019.</p>
Data from: Florivory defence: are phenolic compounds distributed differently within perianths?
Plants might allocate chemical defenses unequally within attractive units of flowers including petals, sepals, and bracts because of variations in the probability of florivory. Based on the optimal defense theory, which predicts that plants allocate higher chemical defenses to tissues with higher probabilities of herbivore attack, we predicted that distal parts and sepals would have higher chemical defense allocations than proximal parts and petals. To test this prediction, we compared total phenolics and condensed tannins concentrations as well as presence of florivory within attractive units of ten angiosperm species. In agreement with the prediction, the overall results showed that the distal parts had higher total phenolics and condensed tannins than the proximal parts. On the other hand, contrary to the prediction, petals and sepals showed no tissue-specific variations. Florivory was more severe on the distal parts than the proximal parts, although statistical support for the variation was slightly weak, while the variations in presence of florivory between petals and sepals differed between the distal and proximal parts. These results may support the prediction of the optimal defense theory because distal parts of attractive units had higher presence of florivory and concentration of chemical defenses.
Data from: Allelopathic effects of volatile organic compounds released from Pinus halepensis needles and roots
The Mediterranean region is recognized as a global biodiversity hotspot. However, over the last decades, the cessation of traditional farming in the north part of Mediterranean basin has given way to strong afforestation leading to occurrence of abandoned agricultural lands colonized by pioneer expansionist species like Pinus halepensis. This pine species is known to synthesize a wide range of secondary metabolites and previous studies have demonstrated strong allelopathic potentialities of its needle and root leachates. Pinus halepensis is also recognized to release significant amounts of volatile organic compounds (VOC) with potential allelopathic effects that has never been investigated. In this context, the objectives of the present study were to improve our knowledge about the VOC released from P. halepensis needles and roots, determine if these VOC affect the seed germination and root growth of two herbaceous target species (Lactuca sativa and Linum strictum), and evaluate if soil microorganisms modulate the potential allelopathic effects of these VOC. Thirty terpenes were detected from both needle and root emissions with β-caryophyllene as the major volatile. Numerous terpenes, such as β-caryophyllene, -terpinene or -pinene showed higher headspace concentrations according to the gradient green needles < senescent needles < needle litter. Seed germination and root growth of the two target species were mainly reduced in presence of P. halepensis VOC. In strong contrast with the trend reported with needle leachates in literature, we observed an increasing inhibitory effect of P. halepensis VOC with the progress of needle physiological stages (i.e. green needle < senescent needle < needle litter). Surprisingly, several inhibitory effects observed on filter paper were also found or even amplified when natural soil was used as a substrate, highlighting that soil microorganisms do not necessarily limit the negative effects of VOC released by P. halepensis on herbaceous target species.
Data from: Surf and Turf Vision: Patterns and predictors of visual acuity in compound eye evolution
<p><span><span>Eyes have the flexibility to evolve to meet the ecological demands of their users.</span><b><span> </span></b><span>Relative to camera-type eyes, the fundamental limits of optical diffraction in arthropod compound eyes restricts the ability to resolve fine detail (visual acuity) to much lower degrees. We tested the capacity of several ecological factors to predict arthropod visual acuity, while simultaneously controlling for shared phylogenetic history. In this study, we have generated the most comprehensive review of compound eye visual acuity measurements to date, containing </span></span><span><span>375 </span></span><span><span>species that span six of the major arthropod classes. An arthropod phylogeny, made custom to this database, was used to develop a phylogenetically-corrected generalized least squares (PGLS) linear model to evaluate four ecological factors predicted to underlie compound eye visual acuity: environmental light intensity, foraging strategy (predator vs. non-predator), horizontal structure of the visual scene, and environmental medium (air vs. water). To account for optical constraints on acuity related to animal size, body length was also included, though this did not show a significant effect in any of our models. Rather, the PGLS revealed that the strongest predictors of compound eye acuity are described by a combination of environmental medium, foraging strategy, and environmental light intensity.</span></span></p>
Electron energy loss spectra of several organic compounds
<p>We placed crystals of different compounds to explore the possibility of fingerprinting them through EELS.</p> <p>Here are representative datasets of 7 different compounds:</p> <ul> <li>b-cyclodextrin</li> <li>hexacarboxy cyclohexane</li> <li>tannin</li> <li>TH-15 peptide</li> <li>TH-27 peptide</li> <li>two different forms of piroxicam</li> </ul> <p>The datasets were collected at EMAT, using a monochromated FEI Titan<sup>3</sup> TEM, within the scope of an EUSMI request.</p> <p>More information as well as analysis methodologies adopted for the data are detailed in the paper:</p> <p>Das <em>et al.</em> "Reliable Characterization of Organic & Pharmaceutical Compounds with High Resolution Monochromated EEL Spectroscopy", <em>Polymers</em> <strong>2020</strong>, <em>12</em>(7), 1434.</p> <p>The paper is Open Access gold and the full text is available at: <a href="https://doi.org/10.3390/polym12071434">https://doi.org/10.3390/polym12071434</a></p>
Screening the Sigma LOPAC®1280 library of compounds for protective effects against cisplatin-induced oto- and nephrotoxicity
<p>Dose-limiting toxicities for cisplatin administration, including ototoxicity and nephrotoxicity, impact the clinical utility of this effective chemotherapy agent and lead to lifelong complications, particularly in pediatric cancer survivors. Using a two-pronged drug screen employing the zebrafish lateral line as an <i>in vivo</i> readout for ototoxicity and kidney cell-based nephrotoxicity assay, we screened 1280 compounds and identified 22 that were both oto- and nephroprotective. Of these, dopamine and L-mimosine, a plant-based amino acid active in the dopamine pathway, were further investigated. Dopamine and L-mimosine protected the hair cells in the zebrafish otic vesicle from cisplatin-induced damage and preserved zebrafish larval glomerular filtration. Importantly, these compounds did not abrogate the cytotoxic effects of cisplatin on human cancer cells. This study provides insights into the mechanisms underlying cisplatin-induced oto- and nephrotoxicity and compelling preclinical evidence for the potential utility of dopamine and L-mimosine in the safer administration of cisplatin.</p>
Functional structure mediates the responses of productivity to addition of three nitrogen compounds in a meadow steppe
<p><span>Atmospheric nitrogen (N) deposition is altering grassland productivity and community structure worldwide. Deposited N comes in different forms, which can have different consequences for productivity due to differences in their fertilization and acidification effects. We hypothesize that these effects may be mediated by changes in plant functional traits. We investigated the responses of </span><span>aboveground primary productivity</span><span> and community functional composition to addition of three nitrogen compounds (NH4NO3, [NH4]2SO4, and CO[NH2]2) at the rates of 0, 5, 10, 20 g N m-2 yr-1. We used structural equation modeling (SEM) to evaluate how functional structure influences the responses of productivity to the three N compounds. Nitrogen addition increased community-level leaf chlorophyll content but decreased leaf dry matter content and phosphorus concentration. These changes were mainly due to intra-specific variation. Functional dispersion of traits was reduced by N addition through changes in species composition. SEM revealed that fertilization effects were more important than soil acidification for the responses of productivity to CO(NH2)2 addition, which enhanced productivity by decreasing functional trait dispersion. In contrast, the effects of (NH4)2SO4 and NH4NO3 were primarily due to soil acidification, influencing productivity via community-weighted means of functional traits. Our results suggest that N forms with different fertilizing and acidifying effects influence productivity via different functional traits pathways. Our study also emphasizes the need for in situ experiments with the relevant N compounds to accurately understand and predict the ecological effects of atmospheric N deposition on ecosystems.</span></p>
Data from: Changes in levels of enzymes and osmotic adjustment compounds in key species and their relevance to vegetation succession in abandoned croplands of a semiarid sandy region
<p>Reclamation of cropland from grassland is regarded as a main reason for grassland degradation; understanding succession from abandoned cropland to grassland is thus crucial for vegetation restoration in arid and semiarid areas. Soil becomes dry when cropland is reverted to grassland, and enzyme and osmotic adjustment compounds may help plants to adapt to a drying environment. Croplands that were abandoned in various years on the Ordos Plateau in China, were selected for the analysis of the dynamics of enzymes and osmotic adjustment compounds in plant species during vegetation succession. With increasing number of years since abandonment, levels of superoxide dismutase<span> increased</span><span> in </span><i><span><span>Stipa</span></span></i><i><span><span> bungeana</span></span></i><span>, first decreased </span><span>and then increased in </span><i><span><span>Lespedeza</span></span></i><i><span><span> davurica</span></span></i><span> and </span><i><span><span>Artemisia f</span></span></i><i><span><span>rigida</span></span></i><span>, and fluctuated in </span><i><span><span>Heteropappus altaicus</span></span></i><span>. Levels</span> of<span> peroxidase and catalase in the four species fluctuated</span><span>;</span> levels of<span> proline, soluble sugar and soluble protein either</span><i> </i><span>decreas</span><span>ed</span><span> or</span><span> first </span><span>increase</span><span>d</span><span> and</span><span> then</span><span> generally decreased.</span> According to <span>a </span><span>drought resistance</span><span> index</span>, the <span>drought resistance of the </span><span>four </span><span>species</span><span> was </span><span>ranked in descending order as follows</span>: <i><span>S. bungeana </span></i><span>> </span><i><span>A. frigida </span></i><span>> </span><i><span>H. altaicus</span></i> <span>> </span><i><span>L. davurica</span></i>. The drought resistance ability of the different species was<span> closely linked with vegetation succession from communities dominated by annual and biennial species (with main accompanying species of </span><i><span><span>L.</span></span></i><i><span><span> davurica</span></span></i> <span>and</span><i><span><span> H. altaicus</span></span></i><span>) to communities dominated by perennial species (</span><i><span><span>S.</span></span></i><i><span><span> bungeana</span></span></i><span> and </span><i><span><span>A. f</span></span></i><i><span><span>rigida</span></span></i><span>) when soil became dry owing to increasing evapotranspiration after cropland abandonment. </span>The restoration of <i><span>S. bungeana </span></i>steppe after cropland abandonment on the Ordos Plateau<span> is recommended both as high-quality forage and for environmental sustainability</span>.</p>
Proton-transfer-reaction time-of-flight mass spectrometry (PTR-TOF-MS) as a tool for studying animal volatile organic compound (VOC) emissions
<p>1. Chemical sensing in vertebrates is crucial in their lives, and efforts are undertaken towards deciphering their chemical language. Volatile organic compounds (VOCs) is a group of chemicals believed to play an essential role in a wide variety of animal interactions. Therefore, understanding what animals sense themselves and untangling the ecological role of their volatile cues can be accomplished by analysing VOC emissions. A Proton-Transfer Reaction Time-of-Flight Mass Spectrometer (PTR-TOF-MS) is an instrument that measures VOCs in real-time in an air sample. Since this technique acts as a hyper-sensitive 'nose' it has a similar potential in deciphering the chemical language of vertebrates.</p> <p>2. Here, we validate the use of PTR-TOF-MS as a tool to measure VOCs from vertebrates, which in turn will help resolve vertebrate interactions through VOCs. The instrument monitors and records the full spectrum of VOCs emitted by an individual with a high accuracy and low detection limit, including transient VOC emissions. We propose and test diverse measuring configurations that allow for measurement of VOC emissions from different vertebrates and their exudates: full body, specific parts of the body, urine and femoral pores. In addition, we test configurations for sudden and short-lasting processes as VOCs emitted during adder skin shedding as well as the emissions of skin secretions upon mechanical and physiological stimulation in amphibia. Our configurations work in tandem with Gas Chromatography Mass Spectrometry (GC-MS) to allow compound structure verification.</p> <p>3. We discuss the configurations and methodologies used and conclude with recommendations for further studies, such as the choice of chamber size and flow. We also report the results of the measurements on vertebrates —that are novel to science— and discuss their ecological meaning.</p> <p>4. We argue that PTR-TOF-MS has a high potential to resolve important unanswered questions in vertebrate chemical ecology with great adaptability to a wide range of experimental setups. If combined with a structure verification tool, such as GC-MS, the creative deployment of PTR-TOF-MS in various future study designs will lead to the identification of ecologically relevant VOCs.</p>
Data from: Deer-mediated changes in environment compound the direct impacts of herbivory on understory plant communities
1. In forests of eastern North America, white-tailed deer (Odocoileus virginianus) can directly affect, via herbivory, the presence, abundance, and reproductive success of many plant species. In addition, deer indirectly influence understory communities by altering environmental conditions. 2. To examine how deer indirectly influence understory plants via environmental modification, we sampled vegetation and environmental variables in- and outside deer exclosures (10-20 years old) located in temperate forests in northern Wisconsin and the Upper Peninsula of Michigan, USA. We assessed how excluding deer affected understory community composition and structure, the soil and light environment, and relationships between direct and indirect effects using non-metric multidimensional scaling (NMDS), mixed linear models and non-parametric multiplicative regression (NPMR). 3. Excluding deer altered sapling communities and several aspects of the understory environment. Excluding deer from plots with lower overstory basal area increased sapling abundance, decreasing the amount of light available to groundlayer plants. Exclusion also reduced soil compaction and the thickness of the soil E horizon. 4. The composition of understory communities and the frequencies of various species and groups covaried in apparent response to the environmental factors affected by exclusion. In several common species and groups, E horizon thickness, compaction, openness, and/or total (sapling and overstory) basal area were significant predictors of plant frequency. 5. Complementary analyses revealed that deer exclusion also altered the frequency distributions of several species and groups across environmental space. Synthesis: Deer alter many facets of the understory environment, such as light availability, soil compaction and depth of the soil E horizon, which, in turn, appear to mediate variation in plant communities. Those environmental modifications likely compound direct impacts of herbivory as drivers of understory community change, having important implications for forest composition. Thus, we suggest a reexamination of the common assumption that understory community shifts stem primarily from tissue removal.
Data from: An optimized protocol for large-scale in situ sampling and analysis of volatile organic compounds
Chemical ecology is an ever‐expanding field with a growing interest in population‐ and community‐level studies. Many such studies are hindered due to lack of an efficient and accelerated protocol for large‐scale sampling and analysis of chemical compounds. Here, we present an optimized protocol for such large‐scale study of volatiles. A large‐scale in situ study to understand role of semiochemicals in variation in mating success of lekking blackbuck was conducted. Suitable methods for sampling and statistical analysis were identified by testing and comparing the efficiencies of available techniques to reduce analysis time while retaining sensitivity and comprehensiveness. Solid‐phase extraction using polydimethylsiloxane, analysis using a semiautomated detection of retention time and base peak, and statistical analysis using random forest algorithm were identified as the most efficient methods for large‐scale in situ sampling and analysis of volatiles. The protocol for large‐scale volatile analysis can facilitate evolutionary and metaecological studies of volatiles in situ from all types of biological samples. The protocol has potential for wider application with the analysis and interpretation methods being suitable for all kinds of semiochemicals, including nonvolatile chemicals.
Data from: Long read reference genome-free reconstruction of a full-length transcriptome from Astragalus membranaceus reveals transcript variants involved in bioactive compound biosynthesis
Astragalus membranaceus, also known as Huangqi in China, is one of the most widely used medicinal herbs in Traditional Chinese Medicine. Traditional Chinese Medicine formulations from Astragalus membranaceus have been used to treat a wide range of illnesses, such as cardiovascular disease, type 2 diabetes, nephritis and cancers. Pharmacological studies have shown that immunomodulating, anti-hyperglycemic, anti-inflammatory, antioxidant and antiviral activities exist in the extract of Astragalus membranaceus. Therefore, characterising the biosynthesis of bioactive compounds in Astragalus membranaceus, such as Astragalosides, Calycosin and Calycosin-7-O-β-D-glucoside, is of particular importance for further genetic studies of Astragalus membranaceus. In this study, we reconstructed the Astragalus membranaceus full-length transcriptomes from leaf and root tissues using PacBio Iso-Seq long reads. We identified 27 975 and 22 343 full-length unique transcript models in each tissue respectively. Compared with previous studies that used short read sequencing, our reconstructed transcripts are longer, and are more likely to be full-length and include numerous transcript variants. Moreover, we also re-characterised and identified potential transcript variants of genes involved in Astragalosides, Calycosin and Calycosin-7-O-β-D-glucoside biosynthesis. In conclusion, our study provides a practical pipeline to characterise the full-length transcriptome for species without a reference genome and a useful genomic resource for exploring the biosynthesis of active compounds in Astragalus membranaceus.
Data from: Genetic variation and evolution of secondary compounds in native and introduced populations of the invasive plant Melaleuca quinquenervia
We examined multivariate evolution of 20 leaf terpenoids in the invasive plant Melaleuca quinquenervia in a common garden experiment. While most compounds, including 1,8-Cineole and Viridiflorol, were reduced in home compared with invaded range genotypes, consistent with an evolutionary decrease in defense, one compound (E-Nerolidol) was greater in invaded than home range genotypes. Nerolidol was negatively genetically correlated with Cineole and Viridiflorol, and the increase in this compound in the new range may have been driven by this negative correlation. There was positive selection on all three focal compounds, and a loss of genetic variation in introduced range genotypes. Selection skewers analysis predicted an increase in Cineole and Viridiflorol and a decrease or no change in Nerolidol, in direct contrast to the observed changes in the new range. This discrepancy could be due to differences in patterns of selection, genetic correlations or the herbivore communities in the home versus introduced ranges. While evolutionary changes in most compounds were consistent with the Evolution of Increased Competitive Ability Hypothesis, changes in other compounds as well as selection patterns were not, indicating that it is important to understand selection and the nature of genetic correlations to predict evolutionary change in invasive species.
Bacterial community richness shifts the balance between volatile organic compound-mediated microbe-pathogen and microbe-plant interactions
Even though bacteria are important in determining plant growth and health via volatile organic compounds (VOCs), it is unclear how these beneficial effects emerge in multi-species microbiomes. Here we studied this using a model plant-bacteria system, where we manipulated bacterial community richness and composition and determined the subsequent effects on VOC production and VOC-mediated pathogen suppression and plant growth-promotion. We assembled VOC-producing bacterial communities in different richness levels ranging from one to twelve strains using three soil-dwelling bacterial genera (Bacillus, Paenibacillus and Pseudomonas) and investigated how the composition and richness of bacterial community affect the production and functioning of VOCs. We found that VOC production correlated positively with pathogen suppression and plant growth-promotion and that all bacteria produced a diverse set of VOCs. However, while pathogen suppression was maximized at intermediate community richness levels when the relative amount and the number of VOCs were the highest, plant growth-promotion was maximized at low richness levels and was only affected by the relative amount of plant growth-promoting VOCs. The contrasting effects of richness could be explained by differences in the amount and number of produced VOCs and by opposing effects of community productivity and evenness on pathogen suppression and plant-growth promotion along the richness gradient. Together, these results suggest that the number of interacting bacterial species and the structure of the rhizosphere microbiome drive the balance between VOC-mediated microbe-pathogen and microbe-plant interactions potentially affecting plant disease outcomes in natural and agricultural ecosystems.
Data from: Reproductive character displacement of epicuticular compounds and their contribution to mate choice in Drosophila subqinaria and D. recens
Interactions between species can alter selection on sexual displays used in mate choice within species. Here we study the epicuticular pheromones of two Drosophila species that overlap partially in geographic range and are incompletely reproductively isolated. D. subquinaria shows a pattern of reproductive character displacement against D. recens, and partial behavioral isolation between conspecific sympatric vs. allopatric populations, whereas D. recens shows no such variation in mate choice. First, using manipulative perfuming experiments, we show that females use pheromones as signals for mate discrimination both between species and among populations of D. subquinaria. Second, we show that patterns of variation in epicuticular compounds, both across populations and between species, are consistent with those previously shown for mating probabilities: pheromone compositions differ between populations of D. subquinaria that are allopatric vs. sympatric with D. recens, but are similar across populations of D. recens regardless of overlap with D. subquinaria. We also identify differences in pheromone composition among allopatric regions of D. subquinaria. In sum, our results suggest that epicuticular compounds are key signals used by females during mate recognition, and that these traits have diverged among D. subquinaria populations in response to reinforcing selection generated by the presence of D. recens.
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.