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2,848 results for “sequence data”
Supporting data for: Whole genome sequencing reveals fine-scale environment associated divergence near the range limits of a temperate reef fish
<p>Environmental variation is increasingly recognized as an important driver of diversity in marine species despite the lack of physical barriers to dispersal and the presence of pelagic stages in many taxa. A robust understanding of the genomic and ecological processes involved in structuring populations is lacking for most marine species, often hindering management and conservation action. Cunner (<em>Tautogolabrus adspersus</em>), is a temperate reef fish with both pelagic early life history stages and strong site-associated homing as adults; the species is also of interest for use as a cleaner fish in salmonid aquaculture in Atlantic Canada. We aimed to characterize genomic and geographic differentiation of cunner in the Northwest Atlantic. To achieve this, a chromosome-level genome assembly for cunner was produced and used to characterize spatial population structure throughout Atlantic Canada using whole genome resequencing. The genome assembly spanned 0.72 Gbp and 24 chromosomes; whole genome resequencing of 803 individuals from 20 locations from Newfoundland to New Jersey identified approximately 11 million genetic variants. Principal component analysis revealed four regional Atlantic Canadian groups. Pairwise F<sub>ST</sub> and selection scans revealed signals of differentiation and selection at discrete genomic regions, including adjacent peaks on chromosome 10 across multiple pairwise comparisons (<em>i.e.</em>, F<sub>ST</sub> 0.5–0.75). Redundancy analysis suggested association of environmental variables related to benthic temperature and oxygen range with genomic structure. Results suggest regional scale diversity in this temperate reef fish and can directly inform the collection and translocation of cunner for aquaculture applications and the conservation of wild populations throughout the Northwest Atlantic.</p>
The data used in correspondence on the article entitled "Reply: Correspondence on NanoVar's performance outlined by Jiang T. et al. in 'Long-read sequencing settings for efficient structural variation detection based on comprehensive evaluation'."
<p>The data used in correspondence on the article entitled “Reply: Correspondence on NanoVar’s performance outlined by Jiang T. et al. in ‘Long-read sequencing settings for efficient structural variation detection based on comprehensive evaluation’.”. It contains the benchmarking results evaluated by Truvari. The running log files of NanoVar are also included in this repository.</p>
Tradeoffs in alignment and assembly-based methods for structural variant detection with long-read sequencing data
<p>Source data for the paper "Tradeoffs in alignment and assembly-based methods for structural variant detection with long-read sequencing data"</p>
Processed Single-cell RNA-sequencing data from adult recurrent respiratory papillomatosis
<p>.rds file (read in R) that contains processed single-cell RNA-sequencing data from 13 untreated adult recurrent respiratory papillomatosis clinical samples. The associated raw RNA sequencing data is available through The Database of Genotypes and Phenotypes (dbGaP), accession number phs003349.v1.p1. Sequences were also alsigned to a, HPV reference to allow quantification of HPV 6 or 11 gene expression. </p>
De novo reconstruction of satellite repeat units from sequence data
<p>Results generated for preprint 'De novo reconstruction of satellite repeat units from sequence data".</p>
Research on Identifying and Treatment Prognosis of Chronic Rhinosinusitis Based on Image and Sequencing Data
ClinicalTrials.gov study NCT05983003. IPD Sharing: NO. Countries: 1. Publications: 2.
Research on Precise Immune Prevention and Treatment of Glioma Based on Multi-omics Sequencing Data
ClinicalTrials.gov study NCT04792437. IPD Sharing: NO. Countries: 1. Publications: 9.
Data from: Assessing the potential of genotyping-by-sequencing-derived single nucleotide polymorphisms to identify the geographic origins of intercepted gypsy moth (Lymantria dispar) specimens: a proof-of-concept study
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Data from: A high-density exome capture genotype-by-sequencing panel for forestry breeding in Pinus radiata
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Data from: Parallel tagged amplicon sequencing reveals major lineages and phylogenetic structure in the North American tiger salamander (Ambystoma tigrinum) species complex
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Genotyping-by-Sequencing data of weedy and domesticated Brassica rapa L.
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Data from: High-throughput sequencing of nematode communities from total soil DNA extractions
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Data from: Whole genome-sequencing and phylogenetic analysis of a historical collection of Bacillus anthracis strains from Danish cattle
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Data from: Looking into the past – the reaction of three grouse species to climate change over the last million years using whole genome sequences
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Data from: Biodiversity assessment using next-generation sequencing: comparison of phylogenetic and functional diversity between Nebraska grasslands
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Data from: Revisiting comparisons of genetic diversity in stable and declining species: assessing genome-wide polymorphism in North American bumble bees using RAD sequencing
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Data from: Targeted re-sequencing of five Douglas-fir provenances reveals population structure and putative target genes of positive selection
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Data from: Exploring evolution and diversity of Chinese Dipterocarpaceae using next-generation sequencing
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Data from: Genomic sequencing reveals historical, demographic and selective factors associated with the diversification of the fire-associated fungus Neurospora discreta
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Data from: Rapid microsatellite isolation from a butterfly by de novo transcriptome sequencing: performance and a comparison with AFLP-derived distances
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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.