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Dataset results
812 results for “Target identification”
Identification of Biomarkers for Prediction of Response or Resistance Against Target Therapy in Gastric Cancer
ClinicalTrials.gov study NCT02305043. IPD Sharing: Not stated. Countries: 1. Publications: 3.
N-of-1 Trial: Actionable Target Identification in Metastatic Cancer for Palliative Systemic Therapy
ClinicalTrials.gov study NCT02142036. IPD Sharing: UNDECIDED. Countries: 1. Publications: 2.
A Systems Biology Approach for Identification of Host and Microbial Mechanisms and Druggable Targets for the Treatment of PSC-IBD
ClinicalTrials.gov study NCT05376228. IPD Sharing: UNDECIDED. Countries: 1. Publications: 2.
Lorcaserin in Obesity: Identification of CNS Targets Using FMRI
ClinicalTrials.gov study NCT02400359. IPD Sharing: NO. Countries: 1. Publications: 1.
rTMS Target Identification for Functional Disability in AUD+mTBI
ClinicalTrials.gov study NCT04043442. IPD Sharing: YES. Countries: 1. Publications: 1.
Data from: Identification of four novel stu-miR169s and their target genes in Solanum tuberosum and expression profiles response to drought stress
Open the record for dataset details and reuse information.
In silico identification of vaccine targets for 2019-nCoV (Data tables)
<p><strong>Background</strong> The newly identified coronavirus known as 2019-nCoV has posed a serious global health threat. According to the latest report (<a href="https://www.who.int/docs/default-source/coronaviruse/situation-reports/20200218-sitrep-29-covid-19.pdf?sfvrsn=6262de9e_2">18-February-2020</a>), it has infected more than 72,000 people globally and led to deaths of more than 1,016 people in China.</p> <p><strong>Methods</strong> The 2019 novel coronavirus proteome was aligned to a curated database of viral immunogenic peptides. The immunogenicity of detected peptides and their binding potential to HLA alleles was predicted by immunogenicity predictive models and NetMHCpan 4.0.</p> <p><strong>Results</strong> We report <em>in silico</em> identification of a comprehensive list of immunogenic peptides that can be used as potential targets for 2019 novel coronavirus (2019-nCoV) vaccine development. First, we found 28 nCoV peptides identical to Severe acute respiratory syndrome-related coronavirus (SARS CoV) that have previously been characterized immunogenic by T cell assays. Second, we identified 48 nCoV peptides having a high degree of similarity with immunogenic peptides deposited in The Immune Epitope Database (IEDB). Lastly, we conducted a <em>de novo</em> search of 2019-nCoV 9-mer peptides that i) bind to common HLA alleles in Chinese and European population and ii) have T Cell Receptor (TCR) recognition potential by positional weight matrices and a recently developed immunogenicity algorithm, iPred, and identified in total 63 peptides with a high immunogenicity potential.</p> <p><strong>Conclusions</strong> Given the limited time and resources to develop vaccine and treatments for 2019-nCoV, our work provides a shortlist of candidates for experimental validation and thus can accelerate development pipeline.</p>
Ultraviolet photodissociation for non-target screening based identification of organic micro-pollutants in water samples
<p>Raw LC-HRMS data that was used for demonstrating the the use of the fragmentation technique ultraviolet photodissociation (UVPD) for the structural elucidation of organic micropollutants (OMPs) in water samples in combination with the 'uvpd' R-package (<a href="https://github.com/cpanse/uvpd/">https://github.com/cpanse/uvpd/</a>). The dataset consists of HCD and UVPD fragmentation data of reference standard samples acquired at various collision energies and reaction times, respectively. The analyses were performed with a Vanquish Horizon UHPLC system coupled to an Orbitrap Fusion Lumos Tribrid instrument with positive and negative ESI ionization. More analytical details are in Panse et al., Molecules, submitted.</p>
Data from: Large-scale proteomics of the cassava storage root and identification of a target gene to reduce post-harvest deterioration
Cassava (Manihot esculenta) is the most important root crop in the tropics, but rapid postharvest physiological deterioration (PPD) of the root is a major constraint to commercial cassava production. We established a reliable method for image-based PPD symptom quantification and used label-free quantitative proteomics to generate an extensive cassava root and PPD proteome. Over 2600 unique proteins were identified in the cassava root, and nearly 300 proteins showed significant abundance regulation during PPD. We identified protein abundance modulation in pathways associated with oxidative stress, phenylpropanoid biosynthesis (including scopoletin), the glutathione cycle, fatty acid α-oxidation, folate transformation, and the sulfate reduction II pathway. Increasing protein abundances and enzymatic activities of glutathione-associated enzymes, including glutathione reductases, glutaredoxins, and glutathione S-transferases, indicated a key role for ascorbate/glutathione cycles. Based on combined proteomics data, enzymatic activities, and lipid peroxidation assays, we identified glutathione peroxidase as a candidate for reducing PPD. Transgenic cassava overexpressing a cytosolic glutathione peroxidase in storage roots showed delayed PPD and reduced lipid peroxidation as well as decreased H2O2 accumulation. Quantitative proteomics data from ethene and phenylpropanoid pathways indicate additional gene candidates to further delay PPD. Cassava root proteomics data are available at www.pep2pro.ethz.ch for easy access and comparison with other proteomics data.
Identification of an arthropod molecular target for plant-derived natural repellents
<p><span>Arthropods maintain ecosystem balance, while also contribute to disease spreading. Plant-derived natural repellents represent an ecological way of pest control, but their direct molecular targets in arthropods remain to be further elucidated. Occupying a critical phylogenetic niche in arthropod evolution, scorpions retain an ancestral genetic </span><span>profile</span><span>. Here, using a behavior-guided screening of the <em>Mesobuthus martensii</em> genome, we identif</span><span>ied</span><span> a scorpion transient receptor potential (sTRP1) channel </span><span>that</span><span> senses <em>Cymbopogon</em>-derived natural repellents, while insensitive to the synthetic chemical pesticide DEET. Scrutinizing orthologs of sTRP1 in <em>Drosophila melanogaster</em>, we further demonstrated dTRP</span>ϒ <span>ion channel also as a chemosensory receptor of natural repellents to mediate avoidance behavior. This study sheds light on arthropod molecular targets of natural repellents, exemplifying the arthropod-plant adaptation. It should also help the rational design of insect control strategy and conserve biodiversity.</span></p>
Activity-based protein profiling for target identification of JCP276 in Mycobacterium tuberculosis
<p><span><span><span><span><span><span><span><span><span><span><span>The increasing incidence of antibiotic-resistant <i>Mycobacterium tuberculosis </i>infections is a growing global health threat necessitating the development of new antibiotics. Serine hydrolases (SHs) are a promising class of targets because of their importance for the synthesis of the mycobacterial cell envelope. We screened a library of small molecules containing serine-reactive electrophiles and identified a series of narrow spectrum inhibitors of <i>M. tuberculous </i>growth. Using these lead molecules we performed competitive activity-based protein profiling and identified SH targets, including enzymes with uncharacterized functions. Lipidomic analyses of compound-treated cultures revealed an accumulation of free lipids and a substantial decrease in lipooligosaccharides, linking SH inhibition to defects in cell envelope biogenesis. Mutant analysis revealed a path to resistance via the synthesis of mycocerates, but not through mutations to target enzymes. We conclude that simultaneous inhibition of multiple SH enzymes is likely to be an effective therapeutic strategy.</span></span></span></span></span></span></span></span></span></span></span></p>
Identification of Novel Targetable Kinases in SR-a GvHD
ClinicalTrials.gov study NCT04342442. IPD Sharing: NO. Countries: 0. Publications: 4.
ELUCIDATE: Enabling Lung Cancer Identification Using Folate Receptor Targeting
ClinicalTrials.gov study NCT04241315. IPD Sharing: NO. Countries: 1. Publications: 0.
Activity-based protein profiling for target identification of JCP276 in Mycobacterium tuberculosis
Open the record for dataset details and reuse information.
Data from: Large-scale proteomics of the cassava storage root and identification of a target gene to reduce post-harvest deterioration
Open the record for dataset details and reuse information.
Identification of an arthropod molecular target for plant-derived natural repellents
Open the record for dataset details and reuse information.
Identification of AP2-O targets [ChIP-seq II]
GEO Series GSE58583. Plasmodium berghei. 2 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Identification of WRKY22 direct targets under submergence in Arabidopsis with ChIP
GEO Series GSE40138. Arabidopsis thaliana. 6 samples. Type: Genome binding/occupancy profiling by genome tiling array.
Genome-wide identification of endogenous NMD-targeted RNAs in human stem cells [pUPF1_RIPseq_ESCs]
GEO Series GSE263400. Homo sapiens. 9 samples. Type: Other.
Regulatory T cell-mediated resolution of lung injury: Identification of potential target genes via expression profiling
GEO Series GSE17355. Mus musculus. 24 samples. Type: Expression profiling by array.
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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.