Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
7,518
datasets available to search
ShareScore release 0.9.0
Dataset results
7,518 results for “screenings”
High-throughput Drug Screening Identifies Ketotifen as a Potential Therapeutic Agent for Neuroendocrine Prostate Cancer
GEO Series GSE225007. Homo sapiens. 4 samples. Type: Expression profiling by high throughput sequencing.
CRISPR/Cas9 Screens Reveal Epstein-Barr virus Synthetic Lethal Targets
GEO Series GSE93681. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
Next-generation interaction screening to discover Mla6aa1-225 related protein-protein interactions regulating barley powdery mildew disease immunity and susceptibility.
GEO Series GSE164815. Hordeum vulgare; Blumeria hordei. 6 samples. Type: Other.
A CRISPR-Cas9 screen identifies essential CTCF anchor sites for Estrogen Receptor-driven breast cancer cell proliferation
GEO Series GSE124667. Homo sapiens. 28 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Genome-wide CRISPR Screen Identifies BUB1 Kinase as a Druggable Vulnerability in Malignant Pleural Mesothelioma
GEO Series GSE292620. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
Genome-wide CRISPR KO screen in BMDMs [Bulk CIRSPR Screen]
GEO Series GSE210338. Mus musculus. 9 samples. Type: Other.
Opportunistic screening for type 2 diabetes in community pharmacies.
<p>Minimal anonymized data set necessary to replicate the sstudy : "Opportunistic screening for type 2 diabetes in community pharmacies. Results from a region-wide experience in Italy" to be published in PlosOne.</p>
Molecular Docking and Virtual Screening of 716 Candidate Natural Bioactive Compounds Against Spike Receptor-Binding Domain of Coronavirus reveals Octahydroeuclein as possible inhibitor
<p>the data of study shows a possible drug candidate for COVID-19</p>
Cervical cancer screening during the COVID-19 Crisis: Africa view point
There are approximately 570,000 cases of cervical cancer and 311,000 deaths from cervical cancer globally (1). Approximately 70% of cancer deaths occur in low and middle income countries and cervical cancer is the most common cancer in Africa (2). Therefore cervical cancer screening saves lives by early detection of cases for early management.
Dataset for CRC screening
<p>Dataset for "Additional outreach effort of providing an opportunity to obtain a kit for fecal immunochemical test during the general health check-up to improve colorectal cancer screening rate in Japan: A longitudinal study"</p>
Beware of the generic machine learning-based scoring functions in structure-based virtual screening
<p>Data sets and the rescoing scores utilized in the paper "Beware of the generic machine learning-based scoring functions in structure-based virtual screening" (DOI: 10.1093/bib/bbaa070)</p>
Screening for simple sequences repeat markers in Hemileia vastatrix
<p><span><span><span><span><span><span><span><span><span><span><span><i>Hemileia vastatrix</i> is the most important fungal pathogen affecting <i>Coffea arabica</i> and has invaded nearly every coffee-growing region in the world and the causal agent of recurrent disease epidemics. The development of resistant varieties of coffee against <i>H. vastatrix</i> requires fundamental understanding of the biology of the fungus. However, the complete life cycle of <i>H. vastatrix</i> remains unknown and conflicting studies exist as to whether the fungus is capable of sexual reproduction or not. Here we used population genetics of <i>H. vastatrix </i>to determine the reproductive mode of the fungus across most of its current geographic range. The genetic relationships among <i>H. vastatrix</i> isolates were determined using eight simple sequence repeat markers (SSRs) developed for this study. The analyses of the standardized index of association (rbarD = 0.114 - 0.557, p = 0.001), Hardy Weinberg equilibrium (p ≤ 0.05), and clonal richness (0 - 0.19) all strongly support asexual reproduction of <i>H. vastatrix</i> in all sampled areas. Similarly, the Minimum Spanning Network reinforces the interpretation of clonal reproduction in the global <i>H. vastatrix</i> population. These findings may have profound implications for resistance breeding and other programs against <i>H. vastatrix</i>.</span></span></span></span></span></span></span></span></span></span></span></p>
Accuracy or novelty: what can we gain from target-specific machine learning-based scoring functions in virtual screening?
<p>Datasets, features, and some representative scripts utilized in the paper "Accuracy or novelty: what can we gain from target-specific machine learning-based scoring functions in virtual screening?" </p>
Data from: Single‐cell profiling screen identifies microtubule‐dependent reduction of variability in signaling
Populations of isogenic cells often respond coherently to signals, despite differences in protein abundance and cell state. Previously, we uncovered processes in the Saccharomyces cerevisiae pheromone response system (PRS) that reduced cell‐to‐cell variability in signal strength and cellular response. Here, we screened 1,141 non‐essential genes to identify 50 "variability genes". Most had distinct, separable effects on strength and variability of the PRS, defining these quantities as genetically distinct "axes" of system behavior. Three genes affected cytoplasmic microtubule function: BIM1, GIM2, and GIM4. We used genetic and chemical perturbations to show that, without microtubules, PRS output is reduced but variability is unaffected, while, when microtubules are present but their function is perturbed, output is sometimes lowered, but its variability is always high. The increased variability caused by microtubule perturbations required the PRS MAP kinase Fus3 and a process at or upstream of Ste5, the membrane‐localized scaffold to which Fus3 must bind to be activated. Visualization of Ste5 localization dynamics demonstrated that perturbing microtubules destabilized Ste5 at the membrane signaling site. The fact that such microtubule perturbations cause aberrant fate and polarity decisions in mammals suggests that microtubule‐dependent signal stabilization might also operate throughout metazoans.
Data from: Teratological and behavioral screening of the National Toxicology Program 91-compound library in zebrafish (Danio rerio)
To screen the tens of thousands of chemicals for which no toxicity data currently exists, it is necessary to move from in vivo rodent models to alternative models, such as zebrafish. Here, we used dechorionated Tropical 5D wildtype zebrafish embryos to screen a 91-compound library provided by the National Toxicology Program (NTP) for developmental toxicity. This library contained 86 unique chemicals that included negative controls, flame retardants, polycyclic aromatic hydrocarbons (PAHs), drugs, industrial chemicals and pesticides. Fish were exposed to five concentrations of each chemical or an equal amount of vehicle (0.5% DMSO) in embryo medium from 6 h post-fertilization (hpf) to 5 d post-fertilization (dpf). Fish were examined daily for mortality and teratogenic effects and photomotor behavior was assessed at 4 and 5 dpf. Of the five negative control compounds in the library, none caused mortality/teratogenesis, but two altered behavior. Chemicals provided in duplicate produced similar outcomes. Overall, 13 compounds caused mortality/teratology but not behavioral abnormalities, 24 only affected behavior, and 18 altered both endpoints, with behavior affected at concentrations that did not cause mortality/teratology (55/86 hits). Of the compounds that affected behavior, 52% caused behavioral abnormalities at either 4 or 5 dpf. Compounds within the same functional group caused different behavioral abnormalities, while similar behavioral patterns were caused by compounds from different groups. Our data suggest that behavior is a sensitive endpoint for developmental toxicity screening that integrates multiple modes of toxic action and is influenced by the age of the larval fish at the time of testing.
Data from: High-throughput screening for ligands of the HEPN domain of sacsin
Sacsin is a large protein implicated in the neurodevelopmental and neurodegenerative disease autosomal recessive spastic ataxia of Charlevoix-Saguenay (ARSACS), which features the loss of Purkinje neurons in the cerebellum. Although the domain architecture of sacsin suggests that it is a neuronal chaperone assisting in protein quality control, the precise function of sacsin remains elusive. Using fluorescence polarization (FP) assays, we confirmed that the HEPN domain of sacsin binds to nucleotides with low micromolar affinities. FP competition assays with a variety of nucleotides and nucleotide analogs revealed that the binding is primarily mediated by the phosphate groups of nucleotides. A high-throughput screen subsequently identified novel small molecule ligands of HEPN, providing new chemical probes for cell culture studies and drug development. Together, the results are consistent with the HEPN domain contributing to the functional activity of sacsin by binding to nucleotides or other multiply charged anionic compounds in neurons.
Data from: From the cover: three-dimensional (3d) heparg spheroid model with physiologically relevant xenobiotic metabolism competence and hepatocyte functionality for liver toxicity screening.
Effective prediction of human responses to chemical and drug exposure is of critical importance in environmental toxicology research and drug development. While significant progress has been made to address this challenge using invitro liver models, these approaches often fail due to inadequate tissue model functionality. Herein, we describe the development, optimization, and characterization of a novel three-dimensional (3D) spheroid model using differentiated HepaRG cells that achieve and maintain physiologically relevant levels of xenobiotic metabolism (CYP1A2, CYP2B6, and CYP3A4/5). This invitro model maintains a stable phenotype over multiple weeks in both 96- and 384-well formats, supports highly reproducible tissue-like architectures and models pharmacologically- and environmentally important hepatic receptor pathways (ie AhR, CAR, and PXR) analogous to primary human hepatocyte cultures. HepaRG spheroid cultures use 50–100× fewer cells than conventional two dimensional cultures, and enable the identification of metabolically activated toxicants. Spheroid size, time in culture and culture media composition were important factors affecting basal levels of xenobiotic metabolism and liver enzyme inducibility with activators of hepatic receptors AhR, CAR and PXR. Repeated exposure studies showed higher sensitivity than traditional 2D cultures in identifying compounds that cause liver injury and metabolism-dependent toxicity. This platform combines the well-documented impact of 3D culture configuration for improved tissue functionality and longevity with the requisite throughput and repeatability needed for year-over-year toxicology screening.
Data from: Renal imaging in 199 Dutch patients with Birt-Hogg-Dubé syndrome: screening compliance and outcome
Birt-Hogg-Dubé syndrome is associated with an increased risk for renal cell carcinoma. Surveillance is recommended, but the optimal imaging method and screening interval remain to be defined. The main aim of our study was to evaluate the outcomes of RCC surveillance to get insight in the safety of annual US in these patients. Surveillance data and medical records of 199 patients with Birt-Hogg-Dubé syndrome were collected retrospectively using medical files and a questionnaire. These patients were diagnosed in two Dutch hospitals and data were collected until June 2014. A first screening for renal cell carcinoma was performed in 172/199 patients (86%). Follow-up data were available from 121 patients. The mean follow-up period per patient was 4.2 years. Of the patients known to be under surveillance, 83% was screened at least annually and 94% at least every two years. Thirty-eight renal cell carcinomas had occurred in 23 patients. The mean age at diagnosis of the first tumour was 51. Eighteen tumours were visualized by ultrasound. Nine small tumours (7-27 mm) were visible on MRI or CT and not detected using ultrasound. Our data indicate that compliance to renal screening is relatively high. Furthermore, ultrasound might be a sensitive, cheap and widely available alternative for MRI or part of the MRIs for detecting clinically relevant renal tumours in BHD patients,but the limitations should be considered carefully. . Data from larger cohorts are necessary to confirm these observations.
Data from: An antibody screen of a Plasmodium vivax antigen library identifies novel merozoite proteins associated with clinical protection
Background. Elimination of Plasmodium vivax malaria would be greatly facilitated by the development of an effective vaccine. A comprehensive and systematic characterization of antibodies to P. vivax antigens in exposed populations is useful in guiding rational vaccine design. Methodology/Principal Findings. In this study, we investigated antibodies to a large library of P. vivax entire ectodomain merozoite proteins in 2 Asia-Pacific populations, analysing the relationship of antibody levels with markers of current and cumulative malaria exposure, and socioeconomic and clinical indicators. 29 antigenic targets of natural immunity were identified. Of these, 12 highly-immunogenic proteins were strongly associated with age and thus cumulative lifetime exposure in Solomon Islanders (P<0.001-0.027). A subset of 6 proteins, selected on the basis of immunogenicity and expression levels, were used to examine antibody levels in plasma samples from a population of young Papua New Guinean children with well-characterized individual differences in exposure. This analysis identified a strong association between reduced risk of clinical disease and antibody levels to P12, P41, and a novel hypothetical protein that has not previously been studied, PVX_081550 (IRR 0.46-0.74; P<0.001-0.041). Conclusion/Significance. These data emphasize the benefits of an unbiased screening approach in identifying novel vaccine candidate antigens. Functional studies are now required to establish whether PVX_081550 is a key component of the naturally-acquired protective immune response, a biomarker of immune status, or both.
A Mechanism to Open Academic Chemistry to High-Throughput Virtual Screening
<h1>Pan-Canadian Chemical Library</h1> <p>This Zenodo repository contains the cheap and druglike subset of the Pan-Canadian Chemical Library (PCCL) project. For more information, visit <a href="https://pccl.thesgc.org/" rel="nofollow">https://pccl.thesgc.org</a>.</p> <h2>PCCL library</h2> <p>The PCCL library is splitted by reaction, then by number of heavy atoms. Two types of files are available in zip archives:</p> <ul> <li>The SMILES format files, with the SMILES string and their product name,</li> <li>The CSV format file, with all the information generated during their enumeration: reagents, druglike properties, etc.</li> </ul> <p>Note: Purchasability is defined according to two integers: 1 for products only composed of BB-50 reagents, and 2 for products composed of BB-40 or BB-50 reagents. Read more about the meaning of these reagents groups in the article below.</p> <h2><a href="https://github.com/cbedart/PCCL#citation"></a>Citation</h2> <p>If you find the PCCL useful or if you use it, please cite our paper:</p> <p>Bedart, C. <em>et al.</em> A Mechanism to Open Academic Chemistry to High-Throughput Virtual Screening. ChemRxiv (2023).<br>doi:10.26434/chemrxiv-2023-jgbgv<br>This content is a preprint and has not been peer-reviewed.</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.