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.
809
datasets available to search
ShareScore release 0.9.0
Dataset results
809 results for “complement”
Structure of Complement C3(H2O) Revealed By Quantitative Cross-Linking/Mass Spectrometry And Modeling
<p>The slow but spontaneous and ubiquitous formation of C3(H2O), the hydrolytic and conformationally rearranged product of C3, initiates antibody-independent activation of the complement system that is a key first line of antimicrobial defense. The structure of C3(H2O) has not been determined. Here we subjected C3(H2O) to quantitative cross-linking/mass spectrometry (QCLMS). This revealed details of the structural differences and similarities between C3(H2O) and C3, as well as between C3(H2O) and its pivotal proteolytic cleavage product, C3b, which shares functionally similarity with C3(H2O). Considered in combination with the crystal structures of C3 and C3b, the QCMLS data suggest that C3(H2O) generation is accompanied by the migration of the thioester-containing domain of C3 from one end of the molecule to the other. This creates a stable C3b-like platform able to bind the zymogen, factor B, or the regulator, factor H. Integration of available crystallographic and QCLMS data allowed the determination of a 3D model of the C3(H2O) domain architecture. The unique arrangement of domains thus observed in C3(H2O), which retains the anaphylatoxin domain (that is excised when C3 is enzymatically activated to C3b), can be used to rationalize observed differences between C3(H2O) and C3b in terms of complement activation and regulation.</p> <p><strong>For more information</strong> about how to reproduce this modeling, see the <a href="https://salilab.org/Complement/">Sali lab website</a> or the README file.</p>
Back to the edge: relative coordinate system for use-wear analysis [complement to Online Resource 6]
<p>Raw data, and R markdown scripts and HTML outputs of the statistical procedures.</p> <p>Instructions to download all files at once are given here: <a href="https://doi.org/10.5281/zenodo.4011952">https://doi.org/10.5281/zenodo.4011952</a></p>
Literature Curated PPIs from "Accurate and Sensitive Interactome Profiling Using a Quantitative Protein-Fragment Complementation Assay"
<p>This dataset includes the literature curated protein-protein interactions supporting the manuscript titled 'Accurate and Sensitive Interactome Profiling Using a Quantitative Protein-Fragment Complementation Assay'.</p>
Raw NanoLuc and NanoBiT Data from "Accurate and Sensitive Interactome Profiling Using a Quantitative Protein-Fragment Complementation Assay"
<p>This dataset includes raw NanoLuc and NanoBiT data supporting the manuscript titled 'Accurate and Sensitive Interactome Profiling Using a Quantitative Protein-Fragment Complementation Assay'.</p>
Analyzed NanoBiT Data from "Accurate and Sensitive Interactome Profiling Using a Quantitative Protein-Fragment Complementation Assay"
<p>This dataset includes analyzed NanoBiT data supporting the manuscript titled 'Accurate and Sensitive Interactome Profiling Using a Quantitative Protein-Fragment Complementation Assay'.</p>
Dataset related to article "Molecular Studies and ex vivo Complement assay on Endothelium Highlight the Genetic Complexity of Atypical Hemolytic Uremic Syndrome: The Case of a Pedigree With a Null CD46 Variant".
<p><em>The files contain raw data related to the article "Molecular Studies and ex vivo Complement assay on Endothelium Highlight the Genetic Complexity of Atypical Hemolytic Uremic Syndrome: The Case of a Pedigree With a Null CD46 Variant", available from <a href="https://www.frontiersin.org/articles/10.3389/fmed.2020.579418/full">https://www.frontiersin.org/articles/10.3389/fmed.2020.579418/ful</a>l.</em></p> <p>File <strong>"Genetic and clinical data"</strong>:</p> <ul> <li>In the sheet "485 aHUS patients" are reported data obtained from the screening of 485 unrelated patients with aHUS including rare variants (RVs) in complement disease-associated genes (<em>CFH, CD46, CFI, C3, CFB </em>and <em>THBD</em>), the presence of <em>CFH-CFHR</em> genomic rearrangements and/or anti-FH antibodies.</li> <li>In the sheet "Pedigrees with c.286+2T>G" are listed all pedigrees carrying the c.286+2T>G variant, the diseases status of all subjects and the age of disease onset of patients. In bold are indicated pedigrees (n=7) used to study the penetrance of aHUS in c.286+2T>G carriers.</li> <li>In the sheet "Haplotypes" are reported genotypes used to evaluate the association between the presence of <em>CFH-H3</em> and <em>CD46<sub>GGAAC</sub></em> risk haplotypes and aHUS. Results of this analysis are reported in Table 3 of the published paper.</li> <li>In the sheet "Raw data Fig.2" are reported data of "platelet count" and "serum creatinine" of the proband used to elaborate Figure 2.</li> </ul> <p>In the file <strong>"C3 and C5b-9 deposition"</strong> is reported the quantification of serum-induced C3 and C5b-9 deposition on human microvascular endothelial cell line (HMEC-1). The fluorescent staining was evaluated with Image J and expressed as pixel<sup>2 </sup>per field analyzed. The fields with the lowest and highest values were excluded from calculation. These values were used to elaborate data included in Table 2 and in Figure 5.</p> <p>In the file <strong>"CD46 protein expression"</strong> are reported data of CD46 expression on peripheral blood mononuclear cells (PBMCs) isolated from the proband, his relatives and healthy volunteers. Data of specific expression of CD46 (evaluated for SCR1 or for SCR4 as reported in the materials and methods section) are indicated as median fluorescence intensity (MFI) percentage compared with the control.</p> <p>In the ppt file <strong>"cDNA amplification and sequencing results"</strong> is reported:</p> <ul> <li>the agarose gel image of the amplified cDNA from the control (ctr), the proband (IV-8) and his healthy father (III-7).</li> <li>Electropherograms obtained from the cDNA sequencing of the control (ctr), the proband (IV-8) and his healthy father (III-7).</li> </ul> <p>Additional data will be made available by the authors, without undue reservation, to any qualified researcher. </p>
Complement activation induces excessive T cell cytotoxicity in severe COVID-19: Analysis of single cell data cohort 1 (Berlin).
<p>This repository contains the R Markdown files with the analysis of CyTOF and scRNA-seq data corresponding to cohort 1 (Berlin) analysed in Georg et al. 2021 "Complement activation induces excessive T cell cytotoxicity in severe COVID-19". Additionally, here we include the necessary CyTOF data to reproduce this analysis.</p> <p>CyTOF data:</p> <ul> <li>The debarcoded fcs files (before batch-correction) can be found in <a href="https://flowrepository.org/id/FR-FCM-Z4P5">https://flowrepository.org/id/FR-FCM-Z4P5</a>. \</li> <li>Here you can find the necessary data to reproduce the analysis (cytof_analysis.Rmd, cytof_analysis.html): <ul> <li>data_norm_all.csv: single-cell protein expression data (after batch-normalization and in linear scale).</li> <li>data_Tcells_annotated.csv: single-cell protein expression of gated T cells with cluster annotation.</li> <li>phenograph_CD4_k30.csv, phenograph_CD8_k30.csv, phenograph_TCRgd_k30.csv: output from Louvain Clustering computed with PhenoGraph (<a href="https://github.com/jacoblevine/PhenoGraph">https://github.com/jacoblevine/PhenoGraph</a>) per T cell compartment.</li> <li>clusterannotation.csv: annotation for each cluster and metacluster</li> </ul> </li> </ul> <p>scRNA-seq data:</p> <ul> <li>The raw data can be found in <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE175450">https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE175450</a></li> <li>Other files to reproduce the analysis (scRNAseq_analysis_1preprocessing.Rmd, scRNAseq_analysis_2clustering.Rmd, scRNAseq_analysis_3convalescent.Rmd): <ul> <li><a href="https://zenodo.org/api/files/76286c93-628d-4251-9118-52130d4a75c6/scRNAseq_Sawitzki_RECAST_09_2021.xlsx">scRNAseq_Sawitzki_RECAST_09_2021.xlsx</a>: Single-cell metadata.</li> <li>scRNAseq_samples.tsv: Samples metadata.</li> <li><a href="https://zenodo.org/api/files/76286c93-628d-4251-9118-52130d4a75c6/scRNAseq_genelist_annotation.xlsx">scRNAseq_genelist_annotation.xlsx</a>: <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE175450">G</a>ene list for the annotation of T cells (Also in Mendeley, see Data and Code Availability).</li> <li><a href="https://zenodo.org/api/files/76286c93-628d-4251-9118-52130d4a75c6/scRNAseq_GO_RESPONSE_TO_TYPE_I_INTERFERON.txt">scRNAseq_GO_RESPONSE_TO_TYPE_I_INTERFERON.txt</a>, <a href="https://zenodo.org/api/files/76286c93-628d-4251-9118-52130d4a75c6/scRNAseq_GO_DEFENSE_RESPONSE_TO_VIRUS.txt">scRNAseq_GO_DEFENSE_RESPONSE_TO_VIRUS.txt</a>, , <a href="https://zenodo.org/api/files/76286c93-628d-4251-9118-52130d4a75c6/scRNAseq_GO_T_CELL_MEDIATED_CYTOTOXICITY.txt">scRNAseq_GO_T_CELL_MEDIATED_CYTOTOXICITY.txt</a>: Gene lists for the signatures “Response to Type I Interferon” , “Defense Response to virus” and “Cytotoxicity” used for GSEA. (Also in Table S2).</li> <li><a href="https://zenodo.org/api/files/76286c93-628d-4251-9118-52130d4a75c6/scRNAseq_traj18_trav10.txt">scRNAseq_traj18_trav10.txt</a>,<a href="https://zenodo.org/api/files/76286c93-628d-4251-9118-52130d4a75c6/scRNAseq_trbv25.txt">scRNAseq_trbv25.txt</a>: sequences to determine the proportion of TRAV10-TRAJ18-TRBV25 pairing T cell clones across all T cell clusters.</li> </ul> </li> </ul>
A Complement Atlas identifies interleukin 6 dependent alternative pathway dysregulation as a key druggable feature of COVID-19.
<p>Improvements in COVID-19 treatments, especially for the critically ill, require deeper understanding of the mechanisms driving disease pathology. The complement system is a crucial component of innate host defense, but can also contribute to tissue injury. Although all complement pathways have been implicated in COVID-19 pathogenesis, the upstream drivers and downstream effects on tissue injury remain poorly defined. We demonstrate that complement activation is primarily mediated by the alternative pathway, and we provide a comprehensive atlas of the complement alterations around the time of respiratory deterioration. Proteomic and single-cell sequencing mapping across cell types and tissues reveals a division of labor between lung epithelial, stromal, and myeloid cells in complement production, in addition to liver-derived factors. We identify IL-6 and STAT1/3 signaling as an upstream driver of complement responses, linking complement dysregulation to approved COVID-19 therapies. Furthermore, an exploratory proteomic study indicates that inhibition of complement C5 decreases epithelial damage and markers of disease severity. Collectively, these results support complement dysregulation as a key druggable feature of COVID-19.</p>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Sweden
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Slovakia
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Norway
<p>This dataset contains the results of the surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Slovenia
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - The United Kingdom
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund</li> </ul> <p>Disclaimer: Data collected by the UK at national level prior to 31/01/2020 has been used in EFSA data reports as is related to a period in which this country was still a European Union Member State.</p>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Malta
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Portugal
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Ireland
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union- The Netherlands
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - France
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Hungary
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Czechia
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2019, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
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.