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590
datasets available to search
ShareScore release 0.9.0
Dataset results
590 results for “Targeted sequencing”
A 3’-end capture sequencing method for high-throughput targeted gene expression profiling
GEO Series GSE190096. Homo sapiens. 720 samples. Type: Expression profiling by high throughput sequencing.
Characterization of microglia polarization states under targeted AAV transduction using bulk and single cell RNA sequencing
GEO Series GSE197743. Mus musculus. 28 samples. Type: Expression profiling by high throughput sequencing.
A direct role for a mitochondrial targeting sequence in triggering a stress response
GEO Series GSE303345. Saccharomyces cerevisiae. 15 samples. Type: Expression profiling by high throughput sequencing.
High-throughput sequencing and degradome analysis reveal two distinct evolutionary patterns of Cercis gigantea microRNAs and their targets
GEO Series GSE66754. Cercis gigantea (nom. inval.). 2 samples. Type: Non-coding RNA profiling by high throughput sequencing; Other.
Decoding target genes of ESRP1 by crosslinking-immunoprecipitation and high-throughput sequencing (CLIP seq)
GEO Series GSE233931. Homo sapiens. 4 samples. Type: Expression profiling by high throughput sequencing; Other.
Bisulfite sequencing coupled to target enrichment in MCF-7
GEO Series GSE69505. Homo sapiens. 2 samples. Type: Methylation profiling by high throughput sequencing.
Specific silencing of pathogenic mRNA by a novel compact RNA-targeting tool TaqTth-hpRNA [Amplicon sequencing]
GEO Series GSE269593. Escherichia coli BL21. 2 samples. Type: Other.
Computational prediction of miRNAs and their targets in Phaseolus vulgaris using simple sequence repeat signatures
GEO Series GSE68305. Phaseolus vulgaris. 1 samples. Type: Non-coding RNA profiling by high throughput sequencing.
The use of targeted next-generation sequencing to determine the regulatory function of TGF‐β1 in kidney fibrosis [RNA-seq]
GEO Series GSE121700. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
Sequence-Targeted Nucleosome Sliding in vivo - Transcription Profiling
GEO Series GSE72571. Saccharomyces cerevisiae. 17 samples. Type: Expression profiling by high throughput sequencing.
Multi-center Korean cohort study based on RNA-sequencing data targeting COPD patients
GEO Series GSE240656. Homo sapiens. 294 samples. Type: Expression profiling by high throughput sequencing.
Next generation sequencing to find new medical targets for the treatment of conduit stenosis
GEO Series GSE150288. Homo sapiens. 18 samples. Type: Expression profiling by high throughput sequencing.
Targeted Next-Generation Sequencing for profiling frequently mutated genes in early-stage colon cancer
GEO Series GSE172190. Homo sapiens. 44 samples. Type: Other.
RNA sequencing analysis of ARV825 target genes in senescent cells
GEO Series GSE140961. Homo sapiens. 4 samples. Type: Expression 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.
Nuclear RNAi Contributes to the Silencing of Off-target Genes and Repetitive Sequences in Caenorhabditis elegans
GEO Series GSE92307. Caenorhabditis elegans. 2 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Targeted RNA-sequencing of formalin-fixed paraffin-embedded breast cancer tissue samples
GEO Series GSE262825. Homo sapiens. 15 samples. Type: Other.
Data from: 346 target gene sequences from Vitaceae for Hyb-Seq
<p>The Vitaceae (the grape family) consists of 16 genera and ca. 950 species. It is best known for the economically important fruit crop -- the grape <i>Vitis vinifera</i>. The deep phylogenetic relationships and character evolution of the grape family have attracted the attention of researchers in recent years. We herein reconstruct the phylogenomic relationships within Vitaceae using nuclear and plastid genes based on the Hyb-Seq approach and test the newly proposed classification system of the family. The five tribes of the grape family, including Ampelopsideae, Cayratieae, Cisseae, Parthenocisseae, and Viteae, are each robustly supported by both nuclear and chloroplast genomic data. The cupular floral disc (raised above and free from ovary at the upper part) is an ancestral state of Vitaceae, with the inconspicuous floral disc as derived in the tribe Parthenocisseae, and the state of adnate to the ovary as derived in the tribe Viteae. The 5-merous floral pattern was inferred to be the ancestral in Vitaceae, with the 4-merous flowers evolved at least two times in the family. The compound dichasial cyme (cymose with two secondary axes) is ancestral in Vitaceae and the thyrse inflorescence (a combination of racemose and cymose branching) in tribe Viteae is derived. The ribbon-like trichome only evolved once in Vitaceae, as a synapomorphy for the tribe Viteae.</p>
Data from: Multiplex PCR targeting lineage specific SNPs ‐ A highly efficient and simple approach to block out predator sequences in molecular gut content analysis
Background: Food webs form the basis of biological communities, though empirical research has been hindered by difficulties in quantifying interactions. Metabarcoding from predator gut content extractions with universal primers promises to provide simple and rapid insights into food web interactions. However, the highly overabundant predator DNA often completely outcompetes that of the digested prey DNA during PCR, impeding the ability to assess the abundance and diversity of prey items. Methods: Focusing on the issue of overabundance of predator DNA amplified by a commonly used COI primer pair, we use predator lineage-specific SNPs at the 3'-end of PCR primers to selectively block out predators from amplification. While this approach largely prevents predator amplification, it retains high taxonomic versatility for prey lineages. We introduce a novel multilocus assay, targeting four nuclear and mitochondrial rDNA markers and test our approach in a diverse set of spiders from 12 families. We estimate the recovered prey DNA proportions and compare the taxonomic composition of prey communities between markers. Using a feeding experiment, we also explore recovery of prey DNA over time. Results: While commonly used COI primers yield low and very unpredictable amounts of prey DNA, our assay allows for a considerable and consistent prey enrichment across all tested species. The recovered prey's taxonomic composition is comparable between markers and supports results acquired by COI. The new marker set can be amplified in a simple multiplex PCR, considerably reducing the necessary workload. Conclusions: Our multi-locus approach allows the generation of an unprecedented amount of prey data at low cost and effort. Lineage specific PCR is taxonomically versatile and could readily be adapted to any prey-predator interaction, opening up the opportunity for community-wide studies on food web interactions.
Targeted DNA Sequencing of Circulating Tumor Cell-Enriched Samples from Stage II/III NSCLC Patients
<p>Targeted DNA sequencing of circulating tumor cell (CTC) enriched blood samples from stage II/III non-small cell lung cancer (NSCLC) patients prior to undergoing chemoradiation and immunotherapy treatment. The CTC samples were enriched using a label-free microfluidic platform, the Labyrinth. Following enrichment, the samples were fixed in 80% methanol or ethanol and stored at -80C or -20C, respectively. DNA was extracted from the samples using Qiagen's DNA/RNA AllPrep kit and submitted to the Univeristy of Michigan's Advanced Genomics Core (AGC) to perform targeted DNA sequencing using Illumina's TruSight Oncology (TSO) 500 assay. The TSO 500 assay consists of a 523 gene panel of specific oncogenes. Following sequecing, the pair-end fastq files were locally processed through the TSO 500 analysis pipeline (version: ruo-2.2.0.12) to produce the CombinedVariantOutput files per patient. Each file contains a list of all variants detected within the patient. For each variant, the following information is provided: gene name, chromosome, genomic position, reference call, alternative call, allele frequency, depth, p-dot notation, c-dot notation, consequence of variant, and the number of affected exons.</p>
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.