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880 results for “pathogenesis”
T1D-lipidome: Database of lipidomic aberrations during the pathogenesis of type 1 diabetes (T1D)
<p>This is the<strong> living database</strong> of <strong>lipidomic aberrations</strong> during the <strong>pathogenesis of type 1 diabetes</strong> (T1D).</p> <p>The database has been collected from scientific publications that report abnormalities related to the onset of T1D. In practice, this either means:</p> <ol> <li>lipids that are aberrated in blood samples collected from persons, who are later known to have been diagnosed with T1D,</li> <li>lipids that are aberrated in blood samples collected from persons, who are have islet auto-antibodies (IAA-positive), or</li> <li>lipids that are associated with the deterioration of insulin secretion in blood samples collected from persons recently diagnosed with T1D.</li> </ol> <p>This database is described in the following publication. Please cite the publication, if you use the database or related code:</p> <p><strong>Citation</strong></p> <p>Tommi Suvitaival. <strong>Lipidomic Abnormalities During the Pathogenesis of Type 1 Diabetes: a Quantitative Review</strong>. <em>Current Diabetes Reports</em>. 20, 46 (2020). <a href="http://dx.doi.org/10.1007/s11892-020-01326-8">http://dx.doi.org/10.1007/s11892-020-01326-8</a></p> <p><strong>Acknowledgement</strong></p> <p>This project has received funding from the Innovative Medicines Initiative 2 Joint Undertaking under grant agreement No 115797 (<a href="https://www.innodia.eu/">INNODIA</a>). This Joint Undertaking receives support from the Union’s Horizon 2020 research and innovation programme and “EFPIA”, ‘JDRF” and “The Leona M. and Harry B. Helmsley Charitable Trust”.</p>
Age-related proteostatic imbalance exacerbates heart failure with preserved ejection fraction pathogenesis in old mice
<p>Heart failure with preserved ejection fraction (HFpEF) is a leading cause of hospitalization and death in the elderly. While aging strongly increases the incidence of HFpEF, the specific influences of aging on HFpEF at molecular and pathophysiological levels remain unclear. Here, we show that aged mice, when subjected to chronic metabolic and hypertensive stress (2-hit stress), develop an aggravated cardiometabolic HFpEF phenotype compared to younger counterparts. Aged HFpEF mice also display unique pathological characteristics reminiscent of those found in HFpEF patients. We demonstrate that age-related dysfunction in protein quality control (PQC) exacerbates proteostatic stress in HFpEF. Specifically, we demonstrate that increased protein synthesis induced by 2-hit stress combines with age-related impairment in protein degradation in aged HFpEF hearts, culminating in the accumulation of protein aggregates. These findings underscore the importance of incorporating aging into preclinical HFpEF models and support the therapeutic potentials of targeting PQC mechanisms to ameliorate disease outcomes.</p> <p>The deposited data are lc-ms data acquired on the Thermo QEx-Plus system. For any questions, please contact mike kinter mike-kinter at omrf.org</p> <p>This upload contains the bulk of the LC-MS data. But, due to file sizes, and addition group of files can be found at doi 10.5281/zenodo.11094720</p>
Allelic variation in mouse Ticam2 contributes to SARS-CoV pathogenesis
<p>Genotype calls from the MUGA array for an F2 cross between the mouse strains CC003/Unc and CC053/Unc. The results of this F2 cross are in press at G3 </p> <p>Gralinski, L. E., V. D. Menachery, A. P. Morgan, A. Totura, A. Beall <em>et al</em>., 2017 Allelic variation in mouse Ticam2 contributes to SARS-CoV pathogenesis. G3 7: xx-xx.</p>
Native MS dataset for: "Insights into the pathogenesis of primary hyperoxaluria type I from the structural dynamics of alanine:glyoxylate aminotransferase variants"
<p>Native mass spectrometry dataset used in: <strong>Insights into the pathogenesis of primary hyperoxaluria type I from the structural dynamics of alanine:glyoxylate aminotransferase variants.</strong> Pavla Vankova, Juan Luis Pacheco-Garcia, Dmitry S. Loginov, Atanasio Gómez-Mulas, Alan Kádek, José Manuel Martín-Garcia, Eduardo Salido, Petr Man and Angel L. Pey. FEBS Letters (2024)</p> <p><strong>Description:</strong></p> <p>Native mass spectrometry (MS) analysis verifying the oligomeric state of alanine:glyoxylate aminotransferase (AGT) protein and its P11L and I340M (LM) polymorphism and LM G170R mutation variants in primary hyperoxaluria type I.</p> <p><strong>Sample processing:</strong></p> <p>AGT protein as well as its LM and LM G130R mutants were buffer exchanged into 150 mM aqueous ammonium acetate solution (pH 7.5, MS-grade, Sigma-Aldrich) through six cycles of tenfold dilution and re-concentration using centrifugal concentrators Vivaspin 500 (30 kDa cut-off, <em>Sartorius</em>). Desalted proteins were introduced into a Synapt G2Si mass spectrometer (Waters) via static nanoelectrospray ionization from in-house prepared gold-coated borosilicate glass capillaries Kwik-Fil 1B120F-4 (<em>World Precision Instruments</em>). Protein concentration in samples was determined by 280 nm absorbance measurements using DeNovix DS-11 spectrophotometer. Samples were diluted in ammonium acetate and electrosprayed at 1 and 2 µM concentration. The mass spectrometer was carefully tuned for best signal quality and intensity, while keeping ion activation and unfolding minimal. Namely, electrospray voltage was kept at 1.3 kV, source desolvation temperature 80°C, sampling cone 80 V and 10 V collision voltage with 6 ml/min flow of argon in the trap region for thermalization of ions. Quadrupole was operated in a broadband transmission mode up to 8000 m/z while the spectra were acquired in mass range 500 – 20000 m/z. Spectra were externally mass recalibrated using known masses of caesium iodide clusters.</p> <p><strong>Data processing:</strong></p> <p>Raw mass spectra were averaged over 75 scans and further processed in Waters MassLynx 4.1. The averaged spectra were exported for ZENODO deposition as plain in plain m/z vs intensity .txt files as well uploaded as part of the .raw file format of the whole analysis (including initial metadata) with scan descriptions and parameter changes described in a stand-alone .txt descriptor file.</p>
Dynamic analysis of pathogenesis and a suppression function of TREM2-dependent macrophages in skin fibrosis
<p>Systemic sclerosis (SSc) is a chronic and incurable autoimmune disease with high mortality rates, and fibrosis is the distinguishing hallmark in the pathogenesis. Identification of the precise, time dependent composition of stromal and immune cells may provide clues for the establishment of new biomarkers and therapeutic approaches targeting SSc fibrosis. Here, the temporal dynamics of pathological process in a mouse model of skin fibrosis is investigated using single-cell RNA-sequencing (scRNA-seq). we collected skin single cell suspensions for transcriptome profiling by scRNA-seq from four time points after BLM-treatment (day 3, 7, 14, and 28) and untreated control skin (day 0) with on average three replicate mice per time point, and repeated once at each time point.{mouse_SSc_scRNAseq_day0_sample1_B1_1, mouse_SSc_scRNAseq_day3_sample1_B2_1, mouse_SSc_scRNAseq_day3_sample2_B2_2, mouse_SSc_scRNAseq_day7_sample1_B3_1, mouse_SSc_scRNAseq_day7_sample2_B3_2, mouse_SSc_scRNAseq_day14_sample1_B4_1, mouse_SSc_scRNAseq_day14_sample2_B4_2, mouse_SSc_scRNAseq_day28_sample1_B5_1, mouse_SSc_scRNAseq_day28_sample2_B5_2}</p>
Data from: Whole blood transcriptional profiles and the pathogenesis of tuberculous meningitis
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Distinct and essential roles of bZIP transcription factors in stress response and pathogenesis in Alternaria alternata
<p>The ability to cope with environmental abiotic stress and biotic stress is crucial for the survival of plants and microorganisms, which enable them to occupy multiple niches in the environment. Previous studies have shown that transcription factors play crucial roles in regulating various biological processes including multiple stress tolerance and response in eukaryotes. This work identified multiple critical transcription factor genes, metabolic pathways and gene ontology (GO) terms related to abiotic stress response were broadly activated by analyzing the transcriptome of phytopathogenic fungus Alternaria alternata un- der metal ions stresses, oxidative stress, salt stresses, and host-pathogen interaction. We determined the biological functions and regulatory roles of the bZIP transcriptional factor (TF) genes in the phytopathogenic fungus A. alternata by analyzing targeted gene deletion mutants. Morphological analysis provides evidence that bZIPs including Gcn4, MeaB, Atf1, Hac1 and Ada1 are required for morphogenesis as the colony morphology of these gene deletion mutants was significantly different from that of the wild-type. In addition, bZIPs are involved in the resistance to multiple stresses such as oxidative stress (Ada1, Yap1, MetR) and virulence (Hac1, MetR, Yap1, Ada1) at varying degrees. Transcriptome data demonstrated that the inactivation of bZIPs (Hac1, Atf1, Ada1 and Yap1) significantly affected many genes in multiple critical metabolism pathways and gene ontology (GO) terms. Moreover, the ΔHac1 mutants displayed reduced aerial hypha and are hypersensitivity to endoplasmic reticulum disruptors such as tunicamycin and dithiothreitol. Transcriptome analysis showed that inactivation of Hac1 significantly affected the proteasome process and its downstream unfolded protein binding, indicating that Hac1 participates in the endoplasmic reticulum stress response through the conserved unfolded protein response. Taken together, our findings identified many crucial transcription factor genes and pathways related to cell development, abiotic stress response and pathogenesis, and expand our understanding of how microbial pathogens utilize these genes to deal with environmental stresses and achieve successful infection in the host plant.</p>
Inverse influence of HLA-DR7, DR12 and DR13 on the pathogenesis of Der p 1-induced allergic rhinitis
<p>Supplementary tables and figures from the yet to be published study entitled "Inverse influence of HLA-DR7, DR12 and DR13 on the pathogenesis of Der p 1-induced allergic rhinitis".</p>
Dataset related to article "'Understanding fibrosis pathogenesis via modelling macrophage-fibroblast interplay in immune-metabolic context"
<p>This record contains raw data related to article “ 'Understanding fibrosis pathogenesis via modelling macrophage-fibroblast interplay in immune-metabolic context"</p> <p>Abstract not avaible at the moment</p>
Raw data: Association and functional analysis of angiotensin-converting enzyme 2 gene genetic variants with the pathogenesis of pre-eclampsia
<p class="MsoNormal"><span>These data were generated to investigate the association and functional analysis of angiotensin-converting enzyme 2 genetic variants with the pathogenesis of pre-eclampsia(PE). This study conducted a case-control study involving 327 PE patients and 591 healthy pregnant women to explore the associations between candidate variants in the ACE2 gene variants and the pathogenesis of PE.This study collected clinical samples and data, and used logistic regression, false positive report rate, multi factor dimension reduction, functional analysis and other analysis methods to process the research data. </span>Potential functional ACE2 gene variants (rs2106809 A>G, rs6632677 G>C, and rs2074192 C>T) were selected and genotyped using kompetitive allele-specific PCR. The strength of the associations between the studied genetic variants and the risk of PE were evaluated using odds ratios (ORs) and corresponding 95% confidence intervals (CIs).<span> Finally,it showed that the rs2106809 A>Gis significantly associated with the risk of PE via individual locus effects and/or complex gene-gene and gene-environment interactions.</span><span> </span></p>
Study on the role of AIMP1 gene activating PINK1/Parkin pathway in mediating mitochondrial autophagy in the pathogenesis of ARHL
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Evaluation, Pathogenesis, and Outcome of Subjects With or Suspected Traumatic Brain Injury
ClinicalTrials.gov study NCT01132937. IPD Sharing: UNDECIDED. Countries: 1. Publications: 5.
Unraveling the Pathogenesis of Pruritus in Intrahepatic Cholestasis of Pregnancy
ClinicalTrials.gov study NCT06366659. IPD Sharing: NO. Countries: 1. Publications: 2.
Natural History, Pathogenesis, and Outcome of Autoinflammatory Diseases (NOMID/CAPS, DIRA, CANDLE, SAVI, NLRC4-MAS, Still'S-like Diseases, and Other Undifferentiated Autoinflammatory Diseases)
ClinicalTrials.gov study NCT02974595. IPD Sharing: YES. Countries: 1. Publications: 10.
Inflammatory Pathogenesis of Coronary Atherosclerosis in HIV
ClinicalTrials.gov study NCT02624180. IPD Sharing: NO. Countries: 1. Publications: 9.
Studies in the Pathogenesis of Systemic Capillary Leak Syndrome
ClinicalTrials.gov study NCT00936325. IPD Sharing: YES. Countries: 1. Publications: 3.
Raw data: Association and functional analysis of angiotensin-converting enzyme 2 gene genetic variants with the pathogenesis of pre-eclampsia
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Genomic insights into Raffaelea lauricola pathogenesis
<p>Laurel wilt<span> caused by </span><i>Raffaelea lauricola</i> <span>is a lethal vascular disease of North </span>American members of the Lauraceae plant family. This fungus and its primary ambrosia beetle vector <i>Xyleborus glabratus </i>originated from Asia; however, there is no report of laurel wilt causing widespread mortality on native Lauraceae trees in Asia. To gain insight into why <i>R. lauricola</i> is a tree-killing plant pathogen in North America, we generated and compared high quality draft genome assemblies of <i>R. lauricola </i>and its closely related non-pathogenic species <i>R. aguacate. </i>Relative to <i>R. aguacate</i>, the <i>R. lauricola</i> genome uniquely encodes several small-secreted proteins that are associated with virulence in other pathogens and is enriched in secondary metabolite biosynthetic clusters, particularly polyketide synthase (PKS), non-ribosomal peptide synthetase (NRPS) and PKS-NRPS anchored gene clusters. The two species<i> </i>also exhibit significant differences in secreted proteins including CAZymes that are associated with polysaccharide binding including the chitin binding CBM50 (LysM) domain. Transcriptomic comparisons of inoculated redbay trees and <i>in vitro</i>-grown fungal cultures further revealed a number of secreted protein genes, secondary metabolite clusters and alternative sulfur uptake and assimilation pathways that are coordinately up-regulated during infection. Through these comparative analyses we have identified potential adaptations of <i>R. lauricola</i> that may enable it to colonize and cause disease on susceptible hosts. How these adaptations have interacted with co-evolved hosts in Asia, where little to no disease occurs, and non-co-evolved hosts in North America, where lethal wilt occurs, requires additional functional analysis of genes and pathways.</p>
Supplemental data for: Sex differences in branched-chain amino acid and tryptophan metabolism and pathogenesis of youth-onset type 2 diabetes
<p>Supplemental data for: Sex differences in branched-chain amino acid and tryptophan metabolism and pathogenesis of youth-onset type 2 diabetes. </p><p>Metabolites measured from spot urine samples of youth and adolescents. </p>
Part 2 of Age-related proteostatic imbalance exacerbates heart failure with preserved ejection fraction pathogenesis in old mice
<p>Heart failure with preserved ejection fraction (HFpEF) is a leading cause of hospitalization and death in the elderly. While aging strongly increases the incidence of HFpEF, the specific influences of aging on HFpEF at molecular and pathophysiological levels remain unclear. Here, we show that aged mice, when subjected to chronic metabolic and hypertensive stress (2-hit stress), develop an aggravated cardiometabolic HFpEF phenotype compared to younger counterparts. Aged HFpEF mice also display unique pathological characteristics reminiscent of those found in HFpEF patients. We demonstrate that age-related dysfunction in protein quality control (PQC) exacerbates proteostatic stress in HFpEF. Specifically, we demonstrate that increased protein synthesis induced by 2-hit stress combines with age-related impairment in protein degradation in aged HFpEF hearts, culminating in the accumulation of protein aggregates. These findings underscore the importance of incorporating aging into preclinical HFpEF models and support the therapeutic potentials of targeting PQC mechanisms to ameliorate disease outcomes.</p> <p>The deposited data are lc-ms data acquired on the Thermo QEx-Plus system. For any questions, please contact mike kinter mike-kinter at omrf.org</p> <p>This upload contains the second part of the data. The majority of the data and a complete list of authors can be found in 10.5281/zenodo.10993216</p>
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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.