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595
datasets available to search
ShareScore release 0.9.0
Dataset results
595 results for “High-throughput sequencing”
Long noncoding RNAs expression profiles in granulosa of woman with diminished ovarian reserve based on high-throughput sequencing
GEO Series GSE193136. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing.
High-throughput RNA-sequencing-based transcriptomic profiles of embryonic lens development for cataract gene discovery
GEO Series GSE119596. Mus musculus. 15 samples. Type: Expression profiling by high throughput sequencing.
High-throughput sequencing in SLE patients PBMC
GEO Series GSE211700. Homo sapiens. 30 samples. Type: Expression profiling by high throughput sequencing.
High-throughput sequencing of strawberry fruits
GEO Series GSE208640. Fragaria vesca. 41 samples. Type: Methylation profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing.
miRNA high-throughput sequencing of human prostate cancer cell lines P69, M12, M2182
GEO Series GSE79365. Homo sapiens. 5 samples. Type: Non-coding RNA profiling by high throughput sequencing.
High-throughput muscle fiber typing from RNA sequencing data
GEO Series GSE190489. Homo sapiens; Pan troglodytes. 2 samples. Type: Expression profiling by high throughput sequencing.
Gene expression by high-throughput sequencing of T47D-MTVL human breast cancer cells upon H1.2 knock-down
GEO Series GSE190158. Homo sapiens. 4 samples. Type: Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing.
INTEGRATIVE ONCOGENOMIC AND HIGH-THROUGHPUT SEQUENCING ANALYSES OF THE COMMONLY DELETED REGION IN CHROMOSOME 7q32 IN SPLENIC MARGINAL ZONE LYMPHOMA
GEO Series GSE35383. Homo sapiens. 148 samples. Type: Genome variation profiling by array; Expression profiling by array; SNP genotyping by SNP array; Genome variation profiling by SNP array.
High-throughput and site-specific identification of 2'-O methylation sites using Ribose Oxidation sequencing (RibOxi-Seq)
GEO Series GSE96999. Homo sapiens. 10 samples. Type: Expression profiling by high throughput sequencing.
Data from: Modular tagging of amplicons using a single PCR for high-throughput sequencing
High-throughput sequencing (HTS) of PCR amplicons is becoming the method of choice to sequence one or several targeted loci for phylogenetic and DNA barcoding studies. Although the development of HTS has allowed rapid generation of massive amounts of DNA sequence data, preparing amplicons for HTS remains a rate-limiting step. For example, HTS platforms require platform-specific adapter sequences to be present at the 5′ and 3′ end of the DNA fragment to be sequenced. In addition, short multiplex identifier (MID) tags are typically added to allow multiple samples to be pooled in a single HTS run. Existing methods to incorporate HTS adapters and MID tags into PCR amplicons are either inefficient, requiring multiple enzymatic reactions and clean-up steps, or costly when applied to multiple samples or loci (fusion primers). We describe a method to amplify a target locus and add HTS adapters and MID tags via a linker sequence using a single PCR. We demonstrate our approach by generating reference sequence data for two mitochondrial loci (COI and 16S) for a diverse suite of insect taxa. Our approach provides a flexible, cost-effective and efficient method to prepare amplicons for HTS.
Data from: High-throughput sequencing of the T-cell receptor beta chain gene distinguishes two subgroups of cutaneous T-cell lymphoma
[No abstract entered]
Figure 1 from: Anslan S, Nilsson RH, Wurzbacher C, Baldrian P, Tedersoo L, Bahram M (2018) Great differences in performance and outcome of high-throughput sequencing data analysis platforms for fungal metabarcoding. MycoKeys 39: 29-40. https://doi.org/10.3897/mycokeys.39.28109
Figure 1 - Outline of workflow in different analysis pipelines.
Score matching for differential abundance testing of compositional high-throughput sequencing data - data repository
<p>Data repository for "Score matching for differential abundance testing<br>of compositional high-throughput sequencing data" (<a href="https://github.com/bio-datascience/cosmoDA">github</a>)</p> <p>To use, clone the repository, then download the zip file and unpack it in the main directory of the repository.</p>
Data from: Direct PCR meets high-throughput sequencing - metabarcoding of chironomid communities without DNA extraction
<p>Abstract</p> <p>Metabarcoding is a valuable tool for investigating insect community compositions. However, high-throughput applications, such as for biomonitoring, require cost-effective and user-friendly procedures. To investigate if the time-consuming and labour-intensive DNA isolation step can be omitted in metabarcoding, we studied the difference in detection rates and individual read abundance using standard DNA isolation versus direct PCR protocols. Metabarcoding with and without DNA isolation was performed on artificially created communities with known composition as well as on natural communities both of the dipteran family Chironomidae to compare detection rates, individual read abundances and presence-absence community composition. The data sets include read abundances of all artificial and natural community samples. Compositions of the samples per data set are described in the respective README files. ASVs/OTUs and their respective DNA sequences are given. R Scripts for bioinformatic processing (dada2 for ASVs, JAMP for OTUs) are provided.</p> <p>Methods</p> <p>Chironomidae were retrieved from artificial ponds of the Eußerthal Ecosystem Research Station (EERES) near Landau, Germany, in 2019 and 2020. Adult specimens were collected from passive emergence traps. Chironomid samples were stored in 70% ethanol and later dried at 60°C. Samples were then finely ground using a bead mill. PCR-grade water was added to each tissue sample and thoroughly vortexed. The tissue-water mixes were frozen at -20°C until further analysis. Artificial communities were created by pipetting tissue-water mixes of individual chironomids. Natural communities from eight ponds and five consecutive sampling dates were selected to assess the applicability of the dPCR approach compared to standard metabarcoding protocols on natural chironomid communities. Four of the artificial ponds were treated with the mosquito control agent <em>Bacillus thuringiensis israelensis</em> (Bti). Tissue-water mixes of artificial and natural communities were both directly applied to PCR and used for DNA isolation. Illumina sequencing was performed and raw data were bioinformatically prepared. For more details see "Direct PCR meets high-throughput sequencing - metabarcoding of chironomid communities without DNA extraction" (Röder & Schwenk 2023). Raw sequences are available through GenBank SRA archive (BioProject accession number PRJNA989176). </p>
Study on Treatment Mechanisms and Efficacy Prediction of Individualized Transcranial Magnetic Stimulation in Adults With Irritable Bowel Syndrome Using Multimodal MRI and High-Throughput Sequencing
ClinicalTrials.gov study NCT07345377. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Bronchoalveolar Lavage Combined With High-throughput Sequencing Technology
ClinicalTrials.gov study NCT07005466. IPD Sharing: NO. Countries: 1. Publications: 0.
Transcriptomic Analysis of Incisional Hernia Based on High-throughput Sequencing Technology
ClinicalTrials.gov study NCT06366581. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Benign/Malignant Pulmonary Nodule Classification Based on High-throughput Whole-genome Methylation Sequencing(GM-seq)
ClinicalTrials.gov study NCT05415670. IPD Sharing: NO. Countries: 1. Publications: 0.
Multi-site HPV Screening by High-throughput Sequencing in Patients With Chronic HPV-HR Infection Followed by Gynecology
ClinicalTrials.gov study NCT04901351. IPD Sharing: NO. Countries: 1. Publications: 0.
Interest of High-throughput Sequencing of RNAs for the Diagnosis of Heterogeneous Genetic Diseases
ClinicalTrials.gov study NCT03971292. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
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.