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.
13,621
datasets available to search
ShareScore release 0.9.0
Dataset results
13,621 results for “Biologics”
Figure 2. FSP-ITD 342 in Juvenile cranial anatomy of Nimravidae (Mammalia, Carnivora): biological and phylogenetic implications
Figure 2. FSP-ITD 342, cranium in ventral view. Scale = 1 cm.
Figure 1. FSP-ITD 342 in Juvenile cranial anatomy of Nimravidae (Mammalia, Carnivora): biological and phylogenetic implications
Figure 1. FSP-ITD 342, cranium in (A) right lateral view, and (B) left lateral view. Scale = 1 cm.
Figure 15 in The suprageneric groups of the Pimplinae (Hymenoptera: Ichneumonidae): a cladistic re-evaluation and evolutionary biological study
Figure 15. Cladogram resulting from secondary analysis: section 2 (of 9), Delomeristini.
Figures 72–73 in The cladistics and biology of the Callajoppa genus-group (Hymenoptera: Ichneumonidae, Ichneumoninae)
Figures 72–73. (72) Charmedia chavarriai, fore and hind wings. (73) Lagavula gauldi, fore wing.
More intraguild prey than pest species in arachnid diets may compromise biological control in apple orchards
<p>Understanding the full diet of natural enemies is necessary for evaluating their role as biocontrol agents, because many enemy species do not only feed on pests but also on other natural enemies. Such intraguild predation can compromise pest control if the consumed enemies are actually better for pest control than their predators. In this study, we used gut metabarcoding to quantify diets of all common arachnid species in Swedish and Spanish apple orchards. For this purpose, we designed new primers that reduce amplification of arachnid predators while retaining high amplification of all prey group. Results suggest that most arachnids consume a large range of putative pest species on apple but also a high proportion of other natural enemies, where the latter constitute almost a third of all prey sequences. Intraguild predation also varied between regions, with a larger content of heteropteran bugs in arachnid guts from Spanish orchards. There was also a tendency for cursorial spiders to have more intraguild prey in the gut than web spiders. Two groups that may be overlooked as important biocontrol agents in apple orchards seem to be theridiid web spiders and opilionids, where the latter had several small-bodied pest species in the gut. These results thus provide important guidance for what arachnid groups that should be targets of management actions, even though additional information is needed to quantify all direct and indirect interactions occurring in the complex arthropod food webs in fruit orchards.</p>
Changes in selection pressure can facilitate hybridization during biological invasion in a Cuban lizard
<p>Hybridization is among the evolutionary mechanisms most frequently hypothesized to drive the success of invasive species, in part because hybrids are common in invasive populations. One explanation for this pattern is that biological invasions coincide with a change in selection pressures that limit hybridization in the native range. To investigate this possibility, we studied the introduction of the brown anole (<i>Anolis sagrei</i>) in the southeastern United States. We find that native populations are highly genetically structured. In contrast, all invasive populations show evidence of hybridization among native-range lineages. Temporal sampling in the invasive range spanning 15 years showed that invasive genetic structure has stabilized, indicating that large-scale contemporary gene flow is limited among invasive populations and that hybrid ancestry is maintained. Additionally, our results are consistent with hybrid persistence in invasive populations resulting from changes in natural selection that occurred during invasion. Specifically, we identify a large-effect X chromosome locus associated with variation in limb length, a well-known adaptive trait in anoles, and show that this locus is often under selection in the native range, but rarely so in the invasive range. Moreover, we find that the effect size of alleles at this locus on limb length is much reduced in hybrids among divergent lineages, consistent with epistatic interactions. Thus, in the native range, epistasis manifested in hybrids can strengthen extrinsic post-mating isolation. Together, our findings show how a change in natural selection can contribute to an increase in hybridization in invasive populations.</p>
Network analysis reveals rare disease signatures across multiple levels of biological organization - Co-expression dataset
<p>The GTEx-derived co-expression data in 38 tissues generated in Buphamalai et.al., Network analysis reveals rare disease signatures across multiple levels of biological organization, Nature Communications 2021. Please see the publication's Methods section for details.</p>
Open Data_Remedial trial of sequential anoxic_oxic chemico_biological treatment for decontamination of extreme hexachlorocyclohexane concentrations in polluted soil
<p>Open data sheet used for the preparation of the publication "Remedial trial of sequential anoxic/oxic chemico-biological treatment for decontamination of extreme hexachlorocyclohexane concentrations in polluted soil" containing graphs and other data</p>
Activation patterns of afferent synapses on layer 5 tufted pyramidal cells in a biologically detailed simulation
<p>The data set is based on a biologically detailed simulation of a circuit of cortical neurons. The circuit was activated by thalamo-cortical inputs every 1 s for 500 ms. We report for a number of exemplary tufted pyramidal cells in layer 5 the pattern activation of their afferent synapses.</p> <p>Specifically, we report for all afferent excitatory synapses the pairwise path distances along the dendrite / soma (note that the soma was simplified to a point for the purpose of calculating path distances, but not during the simulation), and the times of activation of each of these synapses.</p> <p>The simulation is based on the model described in <a href="https://www.biorxiv.org/content/10.1101/2022.08.11.503144v1">this preprint</a>. The model can also be found <a href="https://zenodo.org/record/6906785">here on Zenodo</a>. For more details on the simulation, contact the author.</p> <p>For more details about the format of the data, refer to the included jupyter notebook.</p>
Raw data: Jiang et al. Plos Computational Biology
<p>Raw data files associated with the publication</p> <p>Fine-grained, Nonlinear Registration of Live Cell Movies Reveals Spatiotemporal Organization of Diffuse Molecular Processes</p> <p>Xuexia Jiang, Tadamoto Isogai, Joseph Chi, Gaudenz Danuser*</p> <p>Lyda Hill Department of Bioinformatics, UT Southwestern Medical Center, Dallas, TX 75390, USA</p> <p>*Correspondence: Gaudenz.Danuser@UTSouthwestern.edu</p> <p>The data is organized figure by figure. Time lapse image sequences are contained in folders of .tif series.</p>
Supplementary material for a usability evaluation of a semantic search for biological datasets
<p>We conducted a usability evaluation for a semantic dataset search with 20 biodiversity scholars in June and July 2022 in Germany.</p> <p>Following the TREC guidelines (https://www-nlpir.nist.gov/projects/t9i/spec.html), we setup eight user tasks and surveys with questionnaires to guide users through the evaluation. The zip file provides questionnaires, survey templates and the original results.</p> <p>A Jupyter notebook for data analysis is provided in our GitHub repository: <a href="https://github.com/fusion-jena/semantic-search-usability-analysis">https://github.com/fusion-jena/semantic-search-usability-analysis</a></p>
Data from: Morphological integration during postnatal ontogeny: Implications for evolutionary biology
<p>How covariance patterns of phenotypes change during development is fundamental for a broader understanding of evolution. There is compelling evidence that mammalian cranium covariance patterns change during ontogeny. However, it is unclear to what extent variation in covariance patterns during ontogeny can impact the response to selection. To tackle this question we explored: i) the extent to which covariance patterns change during postnatal ontogeny; ii) in which ontogenetic stages covariance patterns differ the most, and iii) the extent to which the phenotypic covariance pattern at different ontogenetic stages can be explained by the same processes determining additive genetic covariance. We sampled postnatal ontogenetic series for both marsupials, and placentals. Within each ontogenetic series, we compared covariance matrices (<strong>P</strong>-matrices) at different ontogenetic stages. Furthermore, we compared these <strong>P</strong>-matrices to two target matrices [adult <strong>P</strong>-matrix and an additive genetic covariance matrix (<strong>G</strong>-matrix)]. Our results show that for all ontogenetic series, covariance patterns from weaning onward are conserved and probably shaped by the same processes determining the <strong>G</strong>-matrix. We conclude that irrespective of eventual differences in how selection operates during most of postnatal ontogeny, the net response to such pressures will probably not be affected by ontogenetic differences in the covariance pattern.</p>
Survey for ranking preferences in search for biological datasets
<p>We conducted a survey from November 2018 to March 2019 in Germany among 26 scholars with expertise in biodiversity research to determine preferences in dataset search.<br> In particular, we wanted to explore suitable semantic extensions in the search result and possible additional recommendations on related topics that scholars support in retrieving relevant datasets.</p> <p>The scholars were faced with four different search scenarios and pre-defined answer options. They gave their ratings on a 5-point-Likert scale.<br> The scenarios addressed different important topics in biodiversity research, e.g., a search for organisms, materials, processes and data parameters.</p> <p>This folder contains the original survey results as well as the analysis per topic (category).</p>
Tourists' perceptions of water quality in Finland, dataset, related to article "Browning of Boreal Lakes: Do Public Perceptions and Governance Meet the Biological Foundations?"
<p>Tourists' perceptions of water quality in Finland, dataset, related to article "Browning of Boreal Lakes: Do Public Perceptions and Governance Meet the Biological Foundations?" by Albrecht et al. (2022).<br> <br> <strong>Article abstract:</strong><br> "Surface water browning, also known as brownification, is an acute environmental issue concerning inland waters. We adopt an interdisciplinary perspective and combine limnology, ecology, environmental law, tourism, and economics to build a theoretical framework to understand the consequences and management needs concerning water browning, generate a research agenda, and pinpoint acute research needs. Using a systematic review approach, we identify gaps of knowledge and address the impacts of browning on lake ecosystem functioning. To support the biological information, we present primary survey data to define the recreational use and public perception of waters in Finland. We identified an urgent need for the development of indicators of brownification beyond EU’s Water Framework Directive (WFD) to be able to balance the costs of browning with terrestrial activities that increase browning. Despite a considerable body of research already exists, there is still a need for better understanding of the biogeochemical processes related to browning to progress towards ecosystem-based management of inland waters. Public perception of the quality of waterbodies in Finland was largely in agreement with the proportion of waterbodies classified to meet the good or excellent ecological status, but recreational fishers may value different aspects of water quality compared to the classification based on WFD. Consequently, to build an interdisciplinary understanding of how browning affects boreal lakes and their uses, we suggest improvements for environmental regulation concerning the impact assessment of terrestrial land use activities and ecosystem-based management of inland waters."</p>
Transcriptomics for clinical and experimental biology research: hang on a seq
<p>Additional R script, source data files and figures associated with the paper.</p> <p>The following source files can generate the corresponding figures using the R script (Omics_review_HC_final.R).</p> <p>Figure 1: Fig1_upset_new_V2_general.type.csv</p> <p>Figure 2 & 3: SMP_ENSG_biotypes_average_data_All_genes_V2.xlsx; FUSION_study_CPM-data_fusion_annotated.xlsx</p> <p>Extra Figures (RNA_review_figures_brain_HC.pdf) uploaded here : GSE47774_SEQC_ILM_BGI_Human_Brain_Only.xlsx; GSE47774_SEQC_ILM_BGI_Human_Brain_Only.xlsx</p> <p>Additional raw counts source files:</p> <p>RNA-seq.A: summary data is available at https://www.ebi.ac.uk/birney-srv/FUSION/. Full dataset is available at dbGaP accession phs001048.v2.p1.</p> <p>RNA-seq.B: GSE164471_GESTALT_Muscle_ENSG_counts_annotated.csv</p> <p>RNA-seq.C: GSE97084_Robinson_GeneCount_raw.tsv; GSE97084_Robinson_GeneCount_raw_2.tsv</p> <p>RNA-seq.D: GSE157585_Kulkarni_Peck_et_al_MASTERS_raw_counts.txt</p> <p>RNA-seq.E: GSE151066_Rubenstein_rsem_genes_count.csv</p> <p>HTA2.0 array: SMP191_iron_output_M_GC-HTA_ENST_Grch38_25.500.25.10_log2_2_minimum.csv; ENSG_biotypes_RNA_review_SMP_data</p> <p>Figure 5 & 6 are generated from various source files above following the R script.</p>
Figure 12 in Notes on biology of the ant-mimicking jumping spider Myrmarachne plataleoides (Araneae: Salticidae: Astioida) in south Asia
Figure 12. Sequential photographs showing predation by a female Myrmarachne plataleoides on a conspecific female in Mysuru, Karnataka. Initially these spiders were observed as they engaged in what appeared to be a territorial contest near a nest built at the base of a motorcycle mirror. Feeding was interrupted several times as the winning female left its prey to examine the area, most likely a response to the presence of the photographer.
Figure 10. Selected frames from a 29.97 in Notes on biology of the ant-mimicking jumping spider Myrmarachne plataleoides (Araneae: Salticidae: Astioida) in south Asia
Figure 10. Selected frames from a 29.97 fps video clip showing the defence of a nesting site by a female Myrmarachne plataleoides at Indraprastha Organic Farm (25 MAR 2018). For each frame, the sequential frame number and elapsed time in seconds is shown. 1, Composite of three frames, showing the advance of the defending female, facing and raising legs I, equipped with sharp spines, toward the intruding Cheiracanthium. 2-3, Subsequent pursuit drove the intruder off of the top of the leaf.
Figure 7 in Notes on biology of the ant-mimicking jumping spider Myrmarachne plataleoides (Araneae: Salticidae: Astioida) in south Asia
Figure 7. Two examples of cohabiting male and female Myrmarachne plataleoides at the Indraprastha Organic Farm. 1-4, Male nesting alongside a female nest containing at least one exuvium. Nearby green tree ants tended a colony of scale insects (4-5). A male that may have arrived previously at the site (arrows) appears to have been killed inside of its nest by a fungus (21 MAR 2020). 6-7, In this case both the female and the nearby male (7, lower right) have been killed by a fungus (25 MAR 2020).
Figure 4 in Notes on biology of the ant-mimicking jumping spider Myrmarachne plataleoides (Araneae: Salticidae: Astioida) in south Asia
Figure 4 (continued from previous page). Selected frames from a video documenting the encounter of two male Myrmarachne plataleoides at the Indraprastha Organic Farm. 522-539, The alpha male (at right) advanced to grasp and shake the beta male, as it was carried backward and then released (539). 550-609, As the alpha male maintained his threat posture, the beta male (at top) turned away and fled from its pursuer.
Figure 5 in Notes on biology of the ant-mimicking jumping spider Myrmarachne plataleoides (Araneae: Salticidae: Astioida) in south Asia
Figure 5. Grappling (stage 3) during an agonistic encounter between two male Myrmarachne plataleoides at Kaikondrahalli, Bengaluru, Karnataka (21 DEC 2022). Attribution and ©: 1-5, Chandu Bandi.
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.