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153 results for “Selective signature”
Data from: Genomic signatures of divergent selection and speciation patterns in a 'natural experiment', the young parallel radiations of Nicaraguan crater lake cichlid fishes
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Genomic and Behavioral Signatures of Selection for Ethanol Preference from the Heterogeneous Stock Collaborative Cross Mice – The Central Nucleus of the Amygdala
GEO Series GSE288772. Mus musculus. 200 samples. Type: Expression profiling by high throughput sequencing.
Population Structure, and Selection Signatures underlying High-Altitude Adaptation Inferred from Genome-Wide Copy Number Variations in Chinese Indigenous Cattle
GEO Series GSE142218. Bos indicus; Bos grunniens; Bos taurus. 355 samples. Type: Genome variation profiling by SNP array.
Selective CAR-T cell mediated B cell depletion suppresses interferon signature in SLE [PBMC]
GEO Series GSE263931. Homo sapiens. 28 samples. Type: Expression profiling by high throughput sequencing; Other.
Selective CAR-T cell mediated B cell depletion suppresses interferon signature in SLE [Bcells]
GEO Series GSE263932. Homo sapiens. 20 samples. Type: Expression profiling by high throughput sequencing; Other.
Transcriptional signature of wounded keratinocytes reveals selective roles for ERK1/2, P38 and PI3K signalling pathways
GEO Series GSE6820. Homo sapiens. 36 samples. Type: Expression profiling by array.
Mapping the glial transcriptome in Huntington’s disease using snRNAseq: Selective disruption of glial signatures across brain regions
GEO Series GSE281069. Homo sapiens. 44 samples. Type: Expression profiling by high throughput sequencing.
Development of miRNA expression signatures for selective intrauterine growth restriction (sIUGR) in two fetus placenta tissues
GEO Series GSE98146. Homo sapiens. 6 samples. Type: Non-coding RNA profiling by array.
Effective population size, extended linkage disequilibrium and signatures of selection in the rare dog breed Lundehund
GEO Series GSE66677. Canis lupus familiaris. 28 samples. Type: Genome variation profiling by SNP array; SNP genotyping by SNP array.
Data from: Genetic diversity and genomic signatures of selection among cattle breeds from Siberia, eastern and northern Europe
Domestication in the near eastern region had a major impact on the gene pool of humpless taurine cattle (Bos taurus). As a result of subsequent natural and artificial selection, hundreds of different breeds have evolved, displaying a broad range of phenotypic traits. Here, 10 Eurasian B. taurus breeds from different biogeographic and production conditions, which exhibit different demographic histories and have been under artificial selection at various intensities, were investigated using the Illumina BovineSNP50 panel to understand their genetic diversity and population structure. In addition, we scanned genomes from eight breeds for signatures of diversifying selection. Our population structure analysis indicated six distinct breed groups, the most divergent being the Yakutian cattle from Siberia. Selection signals were shared (experimental P-value < 0.01) with more than four breeds on chromosomes 6, 7, 13, 16 and 22. The strongest selection signals in the Yakutian cattle were found on chromosomes 7 and 21, where a miRNA gene and genes related to immune system processes are respectively located. In general, genomic regions indicating selection overlapped with known QTL associated with milk production (e.g. on chromosome 19), reproduction (e.g. on chromosome 24) and meat quality (e.g. on chromosome 7). The selection map created in this study shows that native cattle breeds and their genetic resources represent unique material for future breeding.
Data from: Properties of different selection signature statistics and a new strategy for combining them
Identifying signatures of recent or ongoing selection is of high relevance in livestock population genomics. From a statistical perspective, determining a proper testing procedure and combining various test statistics is challenging. On the basis of extensive simulations in this study, we discuss the statistical properties of eight different established selection signature statistics. In the considered scenario, we show that a reasonable power to detect selection signatures is achieved with high marker density (>1 SNP/kb) as obtained from sequencing, while rather small sample sizes (~15 diploid individuals) appear to be sufficient. Most selection signature statistics such as composite likelihood ratio and cross population extended haplotype homozogysity have the highest power when fixation of the selected allele is reached, while integrated haplotype score has the highest power when selection is ongoing. We suggest a novel strategy, called de-correlated composite of multiple signals (DCMS) to combine different statistics for detecting selection signatures while accounting for the correlation between the different selection signature statistics. When examined with simulated data, DCMS consistently has a higher power than most of the single statistics and shows a reliable positional resolution. We illustrate the new statistic to the established selective sweep around the lactase gene in human HapMap data providing further evidence of the reliability of this new statistic. Then, we apply it to scan selection signatures in two chicken samples with diverse skin color. Our analysis suggests that a set of well-known genes such as BCO2, MC1R, ASIP and TYR were involved in the divergent selection for this trait.
Data from: Signatures of diversifying selection in European pig breeds
[No abstract entered]
PREDICT Therapy Selection for JAK, T-cell, or IL-6 Inhibitor Therapies Using a Molecular Signature Response Classifier (PREDICT)
ClinicalTrials.gov study NCT06390709. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Genomic and Behavioral Signatures of Selection for Ethanol Preference from the Heterogeneous Stock Collaborative Cross Mice – The Central Nucleus of the Amygdala II
GEO Series GSE293636. Mus musculus. 32 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Data from: Signatures of diversifying selection in European pig breeds
Open the record for dataset details and reuse information.
Data from: Genetic diversity and genomic signatures of selection among cattle breeds from Siberia, eastern and northern Europe
Open the record for dataset details and reuse information.
Data from: Properties of different selection signature statistics and a new strategy for combining them
Open the record for dataset details and reuse information.
Data from: Signatures of natural selection among lineages and habitats in Oncorhynchus mykiss
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Epigenomic maps of the rainbow trout reveal epiQTL signatures of genetic selection and regulatory elements involved in controlling gene expression and genome evolution
GEO Series GSE245212. Oncorhynchus mykiss. 78 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
Identifying super-enhancer-derived signatures with prognostic value through selective inhibitors (Microarray gene expression data)
GEO Series GSE250566. Homo sapiens. 24 samples. Type: Expression profiling by array.
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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.