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.
2,848
datasets available to search
ShareScore release 0.9.0
Dataset results
2,848 results for “sequence data”
Figure 19 from: Tibpromma S, Hyde K, Bhat J, Mortimer P, Xu J, Promputtha I, Doilom M, Yang J, Tang A, Karunarathna S (2018) Identification of endophytic fungi from leaves of Pandanaceae based on their morphotypes and DNA sequence data from southern Thailand. MycoKeys 33: 25-67. https://doi.org/10.3897/mycokeys.33.23670
Figure 19 Phylogram generated from maximum likelihood analysis based on combined LSU and SSU sequence data. Maximum parsimony bootstrap is given above/below the nodes. The newly generated sequences are in red text. The tree is rooted with Schizosaccharomyces pombe.
Example data for "Sunbeam: an extensible pipeline for analyzing metagenomic sequencing experiments"
<p>This repository contains the example datasets analyzed in the Sunbeam paper. Please see the current <a href="http://sunbeam.readthedocs.io/en/latest/quickstart.html">Sunbeam Quickstart Guide</a> for up-to-date instructions on installing and running Sunbeam.</p>
Figure 1 from: Chen H, Al-Shehbaz IA, Yue J, Sun H (2018) New insights into the taxonomy of tribe Euclidieae (Brassicaceae), evidence from nrITS sequence data. PhytoKeys 100: 125-139. https://doi.org/10.3897/phytokeys.100.24756
Figure 1 Phylogenetic tree resulting from Bayesian analysis of the ITS sequences of the 88 Brassicaceae species, of which 28 genera and 82 species in Euclidieae. Posterior probabilities are indicated above branches. Bootstrap support values (>50%) are noted below branches.
Figure 3 from: Anslan S, Nilsson RH, Wurzbacher C, Baldrian P, Tedersoo L, Bahram M (2018) Great differences in performance and outcome of high-throughput sequencing data analysis platforms for fungal metabarcoding. MycoKeys 39: 29-40. https://doi.org/10.3897/mycokeys.39.28109
Figure 3 - Number of OTUs per sample for Illumina data recorded from a) pipeline-generated OTU tables (median differences = 38 OTUs) and from b) filtered OTU tables (median differences = 12 OTUs). The Galaxy workflow was excluded here.
Figure 2 from: Anslan S, Nilsson RH, Wurzbacher C, Baldrian P, Tedersoo L, Bahram M (2018) Great differences in performance and outcome of high-throughput sequencing data analysis platforms for fungal metabarcoding. MycoKeys 39: 29-40. https://doi.org/10.3897/mycokeys.39.28109
Figure 2 - OTU accumulation curves of the evaluated pipelines for a) PacBio and b) Illumina datasets.
Fig. 8 in Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity
Fig. 8. Evolution of pollen morphology using the maximum clade credibility tree of the plastid analysis with a reduced sampling. Pie charts depict the ancestral states reconstructed for pollen form (character 1), aperture number (character 2), aperture diameter (character 3), shape and diameter of mesoporia (characters 4, 5), and pollen size (character 6). For character and state definitions see Appendix 2.
Fig. 10 in Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity
Fig. 10. Evolution of pollen morphology, continued from Fig. 9. Pie charts depict the ancestral states reconstructed for the ektexinous bodies on the aperture membrane including their number (character 13), density (character 14) and shape (character 15). Character 16 defines the reproductive system. Consistently hermaphroditic flowers (state 0) are ancestral and widespread in Amaranthaceae, while the Iresinoids are mostly dioecious (state 1) or sometimes gynodioecious (bisexual and pistillate flowers appear on the same plant; state 2).
Fig. 3 in Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity
Fig. 3. Phylogenetic relationships of Iresine and related Gomphrenoideae based on the analysis of nrITS sequence data and depicting the 50% majority-rule tree of the Bayesian analysis. Subclades A (with further subclades A1, A2 and A3) and B are largely congruent in composition to the plastid tree depicted in Fig. 2. Posterior probabilities are shown above branches, bootstrap values from parsimony (left, bold) and maximum likelihood analysis (right, italics) below branches. The annota- tion bars for the species concepts are placed for identical groups of individuals as in the plastid tree.
Fig. 9 in Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity
Fig. 9. Evolution of pollen morphology, continued from Fig. 8. Pie charts depict the ancestral states reconstructed for tectum characters including tectum completeness (character 7), diameter and frequency of tectum perforations (characters 8, 9), and placement, height and frequency of microspines (characters 10, 11, 12).
Fig. 2 in Pollen characters and DNA sequence data converge on a monophyletic genus Iresine (Amaranthaceae, Caryophyllales) and help to elucidate its species diversity
Fig. 2. Phylogenetic relation- ships of Iresine and related Gomphrenoideae based on a combined analysis of matK-trnK, rpl16 and trnLF sequence data depicting the 50% majority-rule tree of the Bayesian analysis. Posterior probabilities are shown above branches, bootstrap values from parsimony (left, bold) and maximum likelihood analysis (right, italics) below branches.
Supplementary material 1 from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
: Data type: statistical data
Supplementary material 2 from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
: Data type: statistical data
Supplementary material 3 from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
: Data type: phylogenetic data
Figure 5 from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
Figure 5 Biogeographic and phylogenetic expectations for a 'vicariance by erosion' scenario as hypothesized for the southern Cumberland Plateau. A–C Karst (gray) erodes and fragments over time, leading to the isolation and divergence of cave populations (colored circles) in the remaining patches of karst D A phylogeny consistent with the vicariance by erosion process, with taxa that diverge early distributed at the periphery of the eroding region.
Figure 3 from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
Figure 3 Ultrametric tree for the hirtus-group. Bayesian tree estimated from combined partial mitochondrial sequence data. Branches supported by posterior probability >0.90 are labeled with values or, for branches with posterior probability of 1.0, an asterisk. Blue bars indicate 95% confidence intervals of estimated ages for the nodes. Taxa are labeled with species name and specimen identifier (Table 1). Scale at bottom indicates divergence times in millions of years as estimated by BEAST (Drummond et al. 2012). Branch colors correspond to those in Figure 2A.
Figure 1 from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
Figure 1 Eye morphologies in Ptomaphagus. Lateral view of head capsule and compound eye or eyelets (arrowheads) of Ptomaphagus species discussed in this paper. Ptomaphaguscavernicola and P.consobrinus are macrophthalmic and were used as outgroups in this study. Ptomaphagusshapardi, the only soil-dwelling species in the hirtus-group, has reduced eyes and is considered microphthalmic. The other 17 members of the hirtus-group are extremely microphthalmic.
Figure 2B from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
Figure 2B Distribution of hirtus-group species. All known sites for members of the South Cumberlands lineage in Tennessee and Alabama. Exposed karst is shown in gray.
Figure 2A from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
Figure 2A Distribution of hirtus-group species. All known sites for hirtus-group species in Kentucky, Tennessee, Alabama, and Georgia. P.shapardi sites in Oklahoma and Arkansas are indicated in upper right inset map. A dozen species from the southern Cumberland Plateau in Tennessee and Alabama are combined.
Figure 4 from: Leray VL, Caravas J, Friedrich M, Zigler KS (2019) Mitochondrial sequence data indicate "Vicariance by Erosion" as a mechanism of species diversification in North American Ptomaphagus (Coleoptera, Leiodidae, Cholevinae) cave beetles. Subterranean Biology 29: 35-57. https://doi.org/10.3897/subtbiol.29.31377
Figure 4 Distribution of Ptomaphagus species on the southern Cumberland Plateau, overlaid on a digital elevation model. Higher elevations (to 500 m) are indicated by darker shades, lower elevations (to 180 m) by lighter shades. Ptomaphagus species diverging early in the South Cumberlands lineage are limited to isolated ridges and mountains on the fringes of the plateau. These species are P.loedingi (yellow), P.longicornis (dark gray), P.julius (blue), P.solanum (dark green) and P.hazelae (light blue). The colors used here correspond to those in Figure 2B.
Sample data for Permanganate sequencing
<p>Sample datasets for permanganate seq data analysis (human)</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.