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1,574
datasets available to search
ShareScore release 0.9.0
Dataset results
1,574 results for “genome sequencing”
Genome-wide DNA replication profiling and full-length total RNA sequencing from the same single cell [IMR-90 G1]
GEO Series GSE278958. Homo sapiens. 46 samples. Type: Expression profiling by high throughput sequencing; Other.
Long Span DNA Paired-End-Tag (DNA-PET) Sequencing Strategy for the Interrogation of Genomic Structural Mutations
GEO Series GSE32674. Homo sapiens. 5 samples. Type: Genome variation profiling by high throughput sequencing.
Combined Genome and Transcriptome Sequencing to Identify Allelic Selection in Epithelial Ovarian Cancer
GEO Series GSE75935. Homo sapiens. 28 samples. Type: Genome variation profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Genome-wide mRNA expression profiling for Wild Type and Itch-/- Skin Transcriptomes by RNA sequencing
GEO Series GSE65686. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing.
Whole genome sequencing of two Holstein cattle
GEO Series GSE146345. Bos taurus. 2 samples. Type: Genome variation profiling by high throughput sequencing.
Differential gene expression in leukemia is driven by enhancer heterogeneity [Whole Genome Sequencing]
GEO Series GSE297929. Homo sapiens. 2 samples. Type: Other.
Personalized genome sequencing coupled with iPSC technology identifies GTDC1 as a gene involved in Neurodevelopmental Disorders
GEO Series GSE87568. Homo sapiens. 20 samples. Type: Expression profiling by array.
Whole genome RNA sequencing of wild type and nath-10(icb99 and icb102) alleles
GEO Series GSE162226. Caenorhabditis elegans. 9 samples. Type: Expression profiling by high throughput sequencing.
Unraveling the whole genome DNA methylation profile of zebrafish kidney marrow through Oxford Nanopore sequencing
GEO Series GSE232842. Danio rerio. 12 samples. Type: Methylation profiling by high throughput sequencing.
Genome-wide and Cell-type Selective Profiling of In Vivo Small Noncoding RNA:Target RNA Interactions by Chimeric RNA Sequencing
GEO Series GSE263988. Mus musculus. 12 samples. Type: Other.
Genome-wide identification of microRNAs in pomegranate (Punica granatum L.) by high throughput sequencing
GEO Series GSE78498. Punica granatum. 1 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Whole genome bisulfite sequencing of Ing1/Gadd45a double knockout and wildtype mouse embryonic fibroblasts
GEO Series GSE99601. Mus musculus. 2 samples. Type: Methylation profiling by high throughput sequencing.
Genome-wide Lsd1 chromatin occupancy in myoblast C2C12 cells by chromatin immunoprecipitation using an Lsd1 antibody followed by massive parallel sequencing
GEO Series GSE98134. Mus musculus. 6 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
GEO Series GSE15353. Homo sapiens. 13 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Whole genome methylation sequencing for daughter fertility DNA mehylation biomarker
GEO Series GSE211926. Bos taurus. 12 samples. Type: Methylation profiling by high throughput sequencing.
Genome-wide double-stranded RNA sequencing reveals the functional significance of base-paired RNAs in Arabidopsis
GEO Series GSE23439. Arabidopsis thaliana. 5 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Chloroplast genome sequencing reads from sweet potato
<p>Tutorial data for chloroplast genome assembly: fastq reads from illumina and nanopore sequencing for the sweet potato.</p> <p>Data from: Zhou C, Duarte T, Silvestre R et al. 2018 (https://doi.org/10.12688/gatesopenres.12856.1), hosted at EBI ENA under accession numbers: illumina (SRR6828568) and nanopore (SRR6828567).</p> <p>This is how the files have been changed from the original datasets: </p> <p>illumina-reduced: has the first 62,500 reads only</p> <p>illumina-tiny: has the first 12,500 reads only</p> <p>nanopore-reduced: has the first 2,000 reads only</p> <p>nanopore-tiny: has the first 250 reads only</p> <p> </p>
Genotyping-By-Sequencing and Reference Genome Enabled Variant Discovery in Octoploid Strawberry
<p>(P0652) Genotyping-By-Sequencing and Reference Genome Enabled Variant Discovery in Octoploid Strawberry</p> <p>Genotyping-by-sequencing (GBS) approaches have enabled routine high-density genome-wide DNA variant discovery in numerous agriculturally important species. Applications of GBS in octoploid (2n = 8x = 56) strawberry (Fragaria × ananassa) have been hindered by the absence of a reference genome for physically mapping DNA sequences; for discovering variants with sub-genome resolution, or effectively distinguishing homologous from homeologous variation. High-quality reference genome assemblies have recently emerged, supplying the foundation for this study, which focused on demonstrating the utility of GBS for calling sub-genome specific DNA variants in octoploid strawberry. To reduce genomic DNA complexity, double-digest protocols were tested on diverse accessions with two restriction enzyme combinations (PstI-MseI and HindIII-MseI). GBS libraries were sequenced on an Illumina HiSeq 4000 using a 150 bp paired-end protocol. For the purpose of this study, we describe the deployment of a flexible bioinformatic pipeline for GBS-facilitated variant discovery in octoploid strawberry. The percentage of uniquely mapped reads ranged from 51.41% for PstI-MseI to 55.56% for HindIII- MseI resulting in 1,591,764 and 2,362,556 unique locations, respectively. The number of discovered variants was 2.5-fold greater for HindIII-MseI (491,811) than PstI-MseI (199,486). The GBS protocols uncovered a dense genome-wide landscape of DNA variants for high- precision genetic mapping, identification of DNA variants associated with agriculturally important phenotypes, genomic-enabled breeding, and other applications in octoploid strawberry.</p> <p>Poster: PDF of poster and abstract for PAG 2018 (P0652)</p> <p>Figures: PNGs of figures on the poster</p> <p>Scrips: Txt files of SLURM scripts used to generate the follow .vcf files.</p> <p>- 8x_GBS_0_index: Uses BWA to index the reference genome (Edger et al 2019) for later use.</p> <p>- 8x_GBS_1_Demultiplex: Used Sabre to demultiplex fastq.gz files. Demultiplex_key_PE links individuals to their unique barcode.</p> <p>- 8x_GBS_2_Main: adapter removal, sequence alignment, and individual variant calling as a SLURM array. results in a .gvcf file for individuals.</p> <p>- 8x_GBS_3_Variant: population-level variant calling to a final .vcf file</p> <p>VCF: Two VCF files from the two enzyme experiments. H = HindIII-MseI; P = PstI-MseI</p>
The data of complete chloroplast genome sequence of Tilia miqueliana (Malvaceae) in China
<p>This dataset includes the complete chloroplast genome of Tilia miqueliana (Malvaceae) in China.</p>
Whole Genome Sequencing data
<p>The data corresponds to 3 whole genome sequencing experiments for determining the genotype of three mutant strains of the green microalga <em>C. reinhardtii</em> (mutants TSP1, TSP2 and TSP4). The respective description is to be published in the scientific journal "Fronteirs in Plant Science". </p>
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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.