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2,848 results for “sequence data”
FIGURE 12 in Description of nymphs and female subimago of Sparsorythus multilabeculatus Sroka & Soldán, 2008 (Ephemeroptera: Tricorythidae) associated with male imago based on DNA sequence data
FIGURE 12. Sparsorythus multilabeculatus, female subimago in dorsal view.
FIGURE 9 in Description of nymphs and female subimago of Sparsorythus multilabeculatus Sroka & Soldán, 2008 (Ephemeroptera: Tricorythidae) associated with male imago based on DNA sequence data
FIGURE 9. Sparsorythus multilabeculatus, male imago in dorsal view.
Single cell sequencing data of PBMC and CSF from a cohort of Multiple Sclerosis patients and other neurological disease controls
<p><span>Neuroinflammation is often characterised by immune cell infiltrates in the cerebrospinal fluid (CSF). Here we apply single-cell RNA sequencing to explore the functional characteristics of these cells in patients with various inflammatory, infectious and non-inflammatory neurological disorders. We show that CSF is distinct from the peripheral blood in terms of both cellular composition and gene expression. We report that the cellular and transcriptional landscape of CSF is altered in neuroinflammation, but is strikingly similar across different neuroinflammatory disorders. We find clonal expansion of CSF B and T cells in all disorders but most pronounced in inflammatory diseases, and we functionally characterise the transcriptional features of these cells. Finally, we explore the genetic control of gene expression in CSF lymphocytes. Our results highlight the common features of immune cells in the CSF compartment across diverse neurological diseases and may help to identify new targets for drug development or repurposing in Multiple Sclerosis. </span></p> <p><span>This dataset contains a tarball with six files:</span></p> <ul> <li><span>A Seurat object with 5' single-cell gene expression data for all cells in the dataset</span></li> <li><span>A Seurat object with B cells only, containing 5' single-cell gene expression data and VDJ data in the metadata</span></li> <li><span>A Seurat object with T cells only, containing 5' single-cell gene expression data and VDJ data in the metadata</span></li> <li><span>Separate .csv files with the metadata alone for each of the three datasets</span></li> </ul> <p><span>These data have undergone very light quality control and contain only the raw, non-normalised RNA counts in the RNA assay (adjusted only for ambient RNA contamination). Details of QC steps used in the paper are given in the github. Please note that these data were generated across two sites and across multiple batches, and so any analysis should account for this potential source of technical variability. Metadata include the following key columns:</span></p> <ul> <li><span>batch_id: the batch </span></li> <li><span>source: whether the sample is from CSF or PBMC</span></li> <li><span>processing_site: whether the sample was processed in Munich or Cambridge</span></li> <li><span>Category: the diagnostic group (MS, Other Inflammatory Neurological Disease, Other Inflammatory Neurological Disease - Infection, and Non-inflammatory Neurological Disease)</span></li> <li><span>Sex</span></li> <li><span>OCB: whether the patient had CSF oligoclonal bands </span></li> <li><span>fully_anonymous_pseudoid: donor ID</span></li> <li><span>ann_celltypist_lowres: automated cell type assigment at low res </span></li> <li><span>ann_celltypist_highres: automated cell type assigment at high res</span></li> </ul> <p><span>VDJ datasets (B and T cells) contain many additional metadata columns with information on the VDJ and VJ transcripts expressed by each cell. </span></p>
EasyQuant Files, Supplementary Data, and Sequences
<p>This folder contains the raw data used for quantifications (and the quantifications in an Excel sheet).<span> A Word document with the nascent chain sequences is also included. </span></p>
Aggregated variant data from whole-genome sequenced tinnitus patients (TIGER)
<p>Aggregated variant data obtained from tinnitus patients from Sweden.</p> <p>Uploaded datasets are storage in annotated csv files. Annotation was performed using VEP (v106), including population frequencies for each variant from gnomAD, non-finnish Europeans from gnomAD, and swedish population from SweGen project. Pathogenicity scores from CADD are also annotated for each variant. Variants from genes found to be enriched in a gene burden analysis can be found in this aggregated dataset.</p> <p><strong>agg.tiger.csv</strong> - TIGER cohort is composed by 97 swedish whole-genome sequenced constant tinnitus patients.</p> <p><strong>agg.jaguar.csv</strong> - JAGUAR cohort is composed by 147 swedish whole-exome sequenced tinnitus patients .</p> <p><strong>agg.sevtin.csv</strong> - SEVTIN cohort is a subcohort from TIGER, with 34 WGS patients seggregating severe tinnitus phenotype.</p> <p><strong>agg.controls.csv</strong> - Controls is a swedish population cohort composed by 151 whole-exome sequenced swedish individuals.</p>
mRNA sequencing data of liver tumor tissues
GEO Series GSE244591. Homo sapiens. 136 samples. Type: Expression profiling by high throughput sequencing.
Comprehensive Human Embryogenesis Reference Tool using Single-Cell RNA-Sequencing Data
GEO Series GSE254641. Homo sapiens. 2 samples. Type: Expression profiling by high throughput sequencing.
RNA-Seq data of ruminal epithelial tissue and 16S rRNA sequencing data of rumen digesta in goats infusion of three short-chain fatty acids [RNA-seq]
GEO Series GSE221507. Capra hircus. 12 samples. Type: Expression profiling by high throughput sequencing.
Whole genome bisulfite sequencing data of Russian wheat aphid biotypes US-RWA1 (co-fed), US-RWA2 (co-fed) and US-RWA2 (isolated)
GEO Series GSE185975. Diuraphis noxia. 9 samples. Type: Methylation profiling by high throughput sequencing.
RNA-sequencing data of T-AP1-labeled NCI-N87 xenograft tumor cells sorted according to the fluorescence
GEO Series GSE181505. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Digital transformation of herbal medicine: Conversion to biological entity data using tonifying herbal medicine-induced transcriptome sequencing_HT29_batchB
GEO Series GSE244690. Homo sapiens. 60 samples. Type: Expression profiling by high throughput sequencing.
RNA deep sequencing data of the whole transcriptomes of the wild-type, sigB and sigE mutant strains of Mycobacterium smegmatis MC2 155
GEO Series GSE199475. Mycolicibacterium smegmatis. 9 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome sequencing data analysis of Bacillus subtilis NCIB 3610 treated with DMSO and AQCA
GEO Series GSE301691. Bacillus subtilis. 6 samples. Type: Expression profiling by high throughput sequencing.
Retrospective meningiomas RNA-sequencing data.
GEO Series GSE270638. Homo sapiens. 384 samples. Type: Expression profiling by high throughput sequencing.
Digital transformation of herbal medicine: Conversion to biological entity data using tonifying herbal medicine-induced transcriptome sequencing_A549_batchC
GEO Series GSE244684. Homo sapiens. 60 samples. Type: Expression profiling by high throughput sequencing.
Whole genome bisulfite Sequencing data of four types mouse spermatogenesis
GEO Series GSE137743. Mus musculus. 4 samples. Type: Methylation profiling by high throughput sequencing.
single cell RNA-sequencing data from CD4+CD25+ human cells
GEO Series GSE119373. Homo sapiens. 3 samples. Type: Expression profiling by high throughput sequencing.
Targeted single-cell RNA sequencing data of residual TIM-3+ leukemic stem cells post-SCT
GEO Series GSE161894. Homo sapiens. 1 samples. Type: Expression profiling by high throughput sequencing.
Leveraging Single-Cell Sequencing to Classify and Characterize Tumor Subgroups in Bulk RNA-Sequencing Data
GEO Series GSE264680. Homo sapiens. 167 samples. Type: Expression profiling by high throughput sequencing.
RNA-sequencing data of TIP60 mutated and control U2OS cells
GEO Series GSE208382. Homo sapiens. 11 samples. Type: Expression profiling by high throughput sequencing.
ScienceDex guides
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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.