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7,327 results for “Pathway”
Dataset related to article "Manipulating Sirtuin 3 pathway ameliorates renal damage in experimental diabetes"
<p><em>The files contain raw data related to the article "Manipulating Sirtuin 3 pathway ameliorates renal damage in experimental diabetes", available from <a href="https://www.nature.com/articles/s41598-020-65423-0">https://www.nature.com/articles/s41598-020-65423-0</a>.</em></p> <p><strong>Abstract of the manuscript</strong>: More effective treatments for diabetic nephropathy remain a major unmet clinical need. Increased oxidative stress is one of the most important pathological mechanisms that lead to kidney damage and functional impairment induced by diabetes. Sirtuin 3 (SIRT3) is the main mitochondrial deacetylase and critically regulates cellular reactive oxygen species (ROS) production and detoxification. Honokiol is a natural biphenolic compound that, by activating mitochondrial SIRT3, can carry out anti-oxidant, anti-inflammatory and anti-fibrotic activities. Here, we sought to investigate the renoprotective effects of honokiol in BTBR <em>ob/ob</em> mice with type 2 diabetes. Diabetic mice were treated with vehicle or honokiol between the ages of 8 and 14 weeks. Wild-type mice served as controls. Renal <em>Sirt3</em> expression was significantly reduced in BTBR <em>ob/ob</em> mice, and this was associated with a reduction in its activity and increased ROS levels. Selective activation of SIRT3 through honokiol administration translated into the attenuation of albuminuria, amelioration of glomerular damage, and a reduction in podocyte injury. SIRT3 activation preserved mitochondrial wellness through the activation of SOD2 and the restoration of PGC-1α expression in glomerular cells. Additionally, the protective role of SIRT3 in glomerular changes was associated with enhanced tubular <em>Sirt3</em> expression and upregulated renal <em>Nampt</em> levels, indicating a possible tubule-glomerulus retrograde interplay, which resulted in improved glomerular SIRT3 activity. Our results demonstrate the hitherto unknown renoprotective effect of SIRT3 against diabetic glomerular disease and suggest that the pharmacological modulation of SIRT3 activity is a possible novel approach to treating diabetic nephropathy.</p>
Data from: Human-relevant mechanisms and risk factors for TAK-875-induced liver injury identified via a gene pathway-based approach in collaborative cross mice
<p>Development of TAK-875 was discontinued when a small number of serious drug-induced liver injury (DILI) cases were observed in Phase 3 clinical trials. Subsequent studies have identified hepatocellular oxidative stress, mitochondrial dysfunction, altered bile acid homeostasis, and immune response as mechanisms of TAK-875 DILI and the contribution of genetic risk factors in oxidative response and mitochondrial pathways to the toxicity susceptibility observed in patients. We tested the hypothesis that a novel preclinical approach based on gene pathway analysis in the livers of Collaborative Cross mice could be used to identify human-relevant mechanisms of toxicity and genetic risk factors at the level of the hepatocyte as reported in a human genome-wide association study. Eight (8) male mice (4 matched pairs) from each of 45 Collaborative Cross lines were treated with a single oral (gavage) dose of either vehicle or 600 mg/kg TAK-875. As expected, liver injury was not detected histologically and few changes in plasma biomarkers of hepatotoxicity were observed. However, gene expression profiling in the liver identified hundreds of transcripts responsive to TAK-875 treatment across all strains reflecting alterations in immune response and bile acid homeostasis and the interaction of treatment and strain reflecting oxidative stress and mitochondrial dysfunction. Fold-change expression values were then used to develop pathway-based phenotypes for genetic mapping which identified candidate risk factor genes for TAK-875 toxicity susceptibility at the level of the hepatocyte. Taken together, these findings support our hypothesis that a gene pathway-based approach using Collaborative Cross mice could inform sensitive strains, human-relevant mechanisms of toxicity, and genetic risk factors for TAK-875 DILI. This novel preclinical approach may be helpful in understanding, predicting, and ultimately preventing clinical DILI for other drugs.</p>
Data of "Chemistrees: Data-Driven Identification of Reaction Pathways via Machine Learning"
<p>This is the data and assosiated in-house code for the paper:</p> <p>Chemistrees: Data-Driven Identification of Reaction Pathways via Machine Learning</p> <p>Sander Roet, Christopher D. Daub, and Enrico Riccardi</p> <p>Journal of Chemical Theory and Computation <strong>2021</strong> <em>17</em> (10), 6193-6202</p> <p>DOI: 10.1021/acs.jctc.1c00458</p>
Source code and data for Ou et al. 2021 (US state-level capacity expansion pathways with improved modeling of the power sector dynamics within a multisector model)
<p>For details, please check the "readme" file.</p>
Pan-cancer study on variants of canonical miRNA biogenesis pathway components: A pooled analysis
<p>Updated version of 10.5281/zenodo.7248080</p>
Pan-cancer study on variants of canonical miRNA biogenesis pathway components: A pooled analysis
<p>Supplementary Tables S30-S36</p>
thyroid hormone pathway and circadian clock genes
<p>thyroid hormone pathway and circadian clock genes</p>
Supporting Data - Temperature and immunostimulants modulate transcription of the ubiquitin and apoptosis pathways in the Antarctic Harpagifer antarcticus and sub-Antarctic Harpagifer bispinis
<p>C<sub>t</sub> values obtained from Real-Time PCR (<em>ß-ACTIN</em>, <em>UBE3</em>, <em>SMAC/DIABLO</em> and <em>BAX</em> genes) of cDNA from liver, gills and spleen of <em>Harpagifer antarcticus</em> and <em>Harpagifer bispinis</em> fish stimulated with LPS, Poly I:C or non-stimulated (control, PBS-injected) under three temperatures (2, 5 and 8°C).</p>
Supplementary material 1 from: Arianoutsou M, Adamopoulou C, Andriopoulos P, Bazos I, Christopoulou A, Galanidis A, Kalogianni E, Karachle PK, Kokkoris Y, Martinou AF, Zenetos A, Zikos A (2023) HELLAS-ALIENS. The invasive alien species of Greece: time trends, origin and pathways. NeoBiota 86: 45-79. https://doi.org/10.3897/neobiota.86.101778
List of HELLAS-ALIENS species
Supplementary material 5 from: Arianoutsou M, Adamopoulou C, Andriopoulos P, Bazos I, Christopoulou A, Galanidis A, Kalogianni E, Karachle PK, Kokkoris Y, Martinou AF, Zenetos A, Zikos A (2023) HELLAS-ALIENS. The invasive alien species of Greece: time trends, origin and pathways. NeoBiota 86: 45-79. https://doi.org/10.3897/neobiota.86.101778
Alluvial diagram showing the distribution of introduction pathways across impact categories
Fig. 6. Hypothetical biosynthetic pathways for 1–3 in Unusual matrine-adenine hybrids isolated from Sophora davidii and their inhibitory effects on human cytomegalovirus
Fig. 6. Hypothetical biosynthetic pathways for 1–3.
Fig. 8. Proposed biosynthetic pathway for compounds 1, 5, 9, 12, 13 and 16 in Sesquiterpenoids and furan derivatives from the Orychophragmus violaceus (L.) O.E. Schulz endophytic fungus Irpex lacteus OV38
Fig. 8. Proposed biosynthetic pathway for compounds 1, 5, 9, 12, 13 and 16.
Fig. 4. Plausible biogenetic pathway for compounds 1 and 2 in Spirostane saponins with a rearranged A/B ring system isolated from the rhizomes of Ophiopogon japonicus
Fig. 4. Plausible biogenetic pathway for compounds 1 and 2.
Fig. 5. Plausible biosynthetic pathway for 1 3 in Seco- and isopimarane diterpenoids from Kaempferia marginata rhizomes and their NO inhibition activities
Fig. 5. Plausible biosynthetic pathway for 1 3.
Fig. 2 in Alkaloids from Picrasma quassioides: An overview of their NMR data, biosynthetic pathways and pharmacological effects
Fig. 2. Structures of canthinone alkaloids isolated from P. quassioides.
Fig. 1 in Alkaloids from Picrasma quassioides: An overview of their NMR data, biosynthetic pathways and pharmacological effects
Fig. 1. Structures of β-carboline alkaloids isolated from P. quassioides.
Fig. 4 in Alkaloids from Picrasma quassioides: An overview of their NMR data, biosynthetic pathways and pharmacological effects
Fig. 4. The putative biosynthetic pathway of β-carboline and canthinone alkaloids.
Fig. 3 in Alkaloids from Picrasma quassioides: An overview of their NMR data, biosynthetic pathways and pharmacological effects
Fig. 3. Structures of alkaloid dimers isolated from P. quassioide.
Fig. 7. Predictable biosynthesis pathway for some polyacetylenes and acetylenes from S in Comprehensive characterization of polyacetylenes and diterpenes from the underground parts of Solidago altissima L. and their contribution to the overall allelopathic activity
Fig. 7. Predictable biosynthesis pathway for some polyacetylenes and acetylenes from S. altissima.
Fig. 5. The proposed biosynthetic pathways for 1–6 and 12–15 in Diverse gallotannins with α-glucosidase and α-amylase inhibitory activity from the roots of Euphorbia fischeriana steud.
Fig. 5. The proposed biosynthetic pathways for 1–6 and 12–15.
ScienceDex guides
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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.