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.
531
datasets available to search
ShareScore release 0.9.0
Dataset results
531 results for “Genomic differentiation”
Genomic data reveal similar genetic differentiation in aquifer species with different dispersal capabilities and life histories
<p>Little is known about the life histories, genetic structure, and population connectivity of shallow groundwater organisms. We used next-generation sequencing (RAD-seq) to analyze population genomic structure in two aquifer species: <i>Paraperla frontalis</i> (Banks, 1902), a stonefly with groundwater larvae and aerial (winged) adults, and <i>Stygobromus</i> sp., a groundwater-obligate amphipod. We found similar genetic differentiation in each species between floodplains separated by ~70 river km in the Flathead River basin of NW Montana, USA. Given that <i>Stygobromus</i> lacks the aboveground life stage of <i>P. frontalis</i>, our findings suggest that connectivity and magnitude of genetic structure cannot be definitively assumed from life history differences.</p>
Data from: Chromosomal inversions and ecotypic differentiation in Anopheles gambiae: the perspective from whole-genome sequencing
The molecular mechanisms and genetic architecture that facilitate adaptive radiation of lineages remain elusive. Polymorphic chromosomal inversions, due to their recombination-reducing effect, are proposed instruments of ecotypic differentiation. Here we study an ecologically diversifying lineage of An. gambiae, known as the Bamako chromosomal form based on its unique complement of three chromosomal inversions, to explore the impact of these inversions on ecotypic differentiation. We used pooled and individual genome sequencing of Bamako, typical (non-Bamako) An. gambiae, and the sister species An. coluzzii to investigate evolutionary relationships and genome-wide patterns of nucleotide diversity and differentiation among lineages. Despite extensive shared polymorphism and limited differentiation from the other taxa, Bamako clusters apart from the other taxa, and forms a maximally supported clade in neighbor-joining trees based on whole genome data (including inversions) or solely on collinear regions. Nevertheless, FST outlier analysis reveals that the majority of differentiated regions between Bamako and typical An. gambiae are located inside chromosomal inversions, consistent with their role in the ecological isolation of Bamako. Exceptionally differentiated genomic regions were enriched for genes implicated in nervous system development and signaling. Candidate genes associated with a selective sweep unique to Bamako contain substitutions not observed in sympatric samples of the other taxa, and several insecticide resistance gene alleles shared between Bamako and other taxa segregate at sharply different frequencies in these samples. Bamako represents a useful window into the initial stages of ecological and genomic differentiation from sympatric populations in this important group of malaria vectors.
Data from: Genomic identification, characterization and differential expression analysis of SBP-box gene family in Brassica napus
Background: SBP-box genes belong to one of the largest families of transcription factors. Though members of this family have been characterized to be important regulators of diverse biological processes, information of SBP-box genes in the third most important oilseed crop Brassica napus is largely undefined. Results: In the present study, by whole genome bioinformatics analysis and transcriptional profiling, 58 putative members of SBP-box gene family in oilseed rape (Brassica napus L.) were identified and their expression pattern in different tissues as well as possible interaction with miRNAs were analyzed. In addition, B. napus lines with contrasting branch angle were used for investigating the involvement of SBP-box genes in plant architecture regulation. Detailed gene information, including genomic organization, structural feature, conserved domain and phylogenetic relationship of the genes were systematically characterized. By phylogenetic analysis, BnaSBP proteins were classified into eight distinct groups representing the clear orthologous relationships to their family members in Arabidopsis and rice. Expression analysis in twelve tissues including vegetative and reproductive organs showed different expression patterns among the SBP-box genes and a number of the genes exhibit tissue specific expression, indicating their diverse functions involved in the developmental process. Forty-four SBP-box genes were ascertained to contain the putative miR156 binding site, with 30 and 14 of the genes targeted by miR156 at the coding and 3′UTR region, respectively. Relative expression level of miR156 is varied across tissues. Different expression pattern of some BnaSBP genes and the negative correlation of transcription levels between miR156 and its target BnaSBP gene were observed in lines with different branch angle. Conclusions: Taken together, this study represents the first systematic analysis of the SBP-box gene family in Brassica napus. The data presented here provides base foundation for understanding the crucial roles of BnaSBP genes in plant development and other biological processes.
A Study on Combined Low-pass Whole-genome and Methylome Testing of Bloody Nipple Discharge Specimens for Benign-Malignant Differentiation.
ClinicalTrials.gov study NCT07250204. IPD Sharing: NO. Countries: 1. Publications: 0.
Data from: Shared patterns of genome-wide differentiation are more strongly predicted by geography than by ecology.
Open the record for dataset details and reuse information.
Data from: Genomic identification, characterization and differential expression analysis of SBP-box gene family in Brassica napus
Open the record for dataset details and reuse information.
Data from: Genomic and phenotypic differentiation of Arabidopsis thaliana along altitudinal gradients in the North Italian Alps
Open the record for dataset details and reuse information.
Genomic data reveal similar genetic differentiation in aquifer species with different dispersal capabilities and life histories
Open the record for dataset details and reuse information.
Data from: Genome-wide differential expression of synaptic long non-coding RNAs in autism spectrum disorder
Open the record for dataset details and reuse information.
Genomics of population differentiation in humpback dolphins, Sousa spp. in the Indo-Pacific Ocean
Open the record for dataset details and reuse information.
Data from: Chromosomal inversions and ecotypic differentiation in Anopheles gambiae: the perspective from whole-genome sequencing
Open the record for dataset details and reuse information.
Data from: Identifying genomic hotspots of differentiation and candidate genes involved in the adaptive divergence of pea aphid host races
Open the record for dataset details and reuse information.
Data from: Genome-wide SNPs reveal fine-scale differentiation among wingless alpine stonefly populations, and introgression between winged and wingless forms
Open the record for dataset details and reuse information.
Identification of PAX7-induced transcriptional changes and PAX7 genomic binding during skeletal myogenic differentiation of H9 embryonic stem cells
GEO Series GSE98976. Homo sapiens. 22 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
Genome-wide CRISPR screen for comprehensive identification of human factors involved in alternative polyadenylation based on differential localization of CD47 protein
GEO Series GSE288919. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
PDS5A and PDS5B differentially affect gene expression without altering cohesin localization across the genome [RNA-seq]
GEO Series GSE199255. Mus musculus. 21 samples. Type: Expression profiling by high throughput sequencing.
TET2 regulates osteoclast differentiation by interacting with RUNX1 and maintaining genomic 5-hydroxymethylcytosine
GEO Series GSE104828. Mus musculus. 9 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
Genome-wide distribution of AdpA, a global regulator for secondary metabolism and morphological differentiation in Streptomyces, revealed the extent and complexity of the AdpA regulatory network.
GEO Series GSE33994. Streptomyces griseus. 9 samples. Type: Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing.
Dynamics of the 4D genome during in vivo lineage specification and differentiation
GEO Series GSE137477. Mus musculus. 94 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Other.
Genome-wide analysis of differentially expressed profiles of miRNAs, mRNAs, lncRNAs and circRNAs in F. nucleatum infection
GEO Series GSE190606. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing.
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.