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37 results for “type 2 diabetic mice”
Effect of astragalus injection on renal tubular epithelial transdifferentiation in type 2 diabetic mice
<p><strong>Background</strong>: Astragalus injection is used by practitioners of traditional Chinese medicine to treat diabetic nephropathy (DN). The current study was conducted to determine the effect of astragalus on tubular epithelial transdifferentiation during the progression of DN in KKAy mice, as well as to investigate the molecular mechanism underlying this effect.</p> <p> </p> <p><strong>Methods: </strong>Diabetic, 14-week-old, male KKAy mice were randomly divided into a model group and an astragalus treatment group, while age-matched male C57BL/6J mice were selected as controls. The treatment group received daily intraperitoneal injections of astragalus (0.03 mL/10 g per day), while the model group received injections of an equal volume of saline. Mice were euthanized after 24 weeks. Serum samples were obtained from the animals in each group for blood glucose measurement. Kidney tissue samples were used for morphometric studies. The mRNA and protein expression levels of transforming growth factor beta 1 (TGF-β1), transforming growth factor beta receptor 1 (TGFβ-R1), alpha smooth muscle actin (α-SMA), and E-cadherin were evaluated using real-time polymerase chain reaction (PCR) and western blotting.</p> <p> </p> <p><strong>Results: </strong>Astragalus significantly reduced blood glucose levels; inhibited morphological changes in the kidneys of KKAy mice; reduced mRNA and protein expression levels of TGF-β1, TGFβ-R1, and α-SMA; and increased E-cadherin expression.</p> <p> </p> <p><strong>Conclusions:</strong> Tubular epithelial transdifferentiation plays an important role in the development of DN in diabetic mice. Administration of astragalus likely prevents or mitigates DN by suppressing tubular epithelial transdifferentiation, protecting KKAy mice from renal damage.</p>
Defective interferon signaling in the circulating monocytes of type 2 diabetic mice
<h1>Data Repository for scRNA-seq and Cell Communication Analysis in T2DM Stroke Model</h1> <p>This repository contains the data and Seurat/CellChat objects generated for analyzing the transcriptomic response of peripheral monocytes to Type 2 Diabetes Mellitus (T2DM) and ischemic stroke in a mouse model. Data were generated using single-cell RNA sequencing (scRNA-seq), bulk RNA-seq, and analysis with NicheNet and CellChat. This study aims to reveal molecular and cellular changes in diabetic and ischemic conditions, particularly focusing on interferon signaling and inflammation.</p> <h2>Repository Structure</h2> <h3>Root Files</h3> <ul> <li> <p><code>README.md</code>: This file, describing the repository and data files.</p> </li> <li> <p><code>cellchat_object/</code>: Contains RDA files for CellChat analysis.</p> </li> <li> <p><code>scrna_sequencing_raw/</code>: Raw scRNA-seq data files.</p> </li> <li> <p><code>seurat_object/</code>: Contains Seurat objects for clustering and visualization.</p> </li> <li> <p><code>trajectory_object/</code>: Contains Cell Data Set (CDS) objects for trajectory and pseudotime analysis.</p> </li> </ul> <h3>File Descriptions</h3> <h4><code>cellchat_object/</code></h4> <ul> <li> <p><strong>dbdb_case_cellchat.rda</strong>: CellChat object for the db/db mice with ischemic stroke. Analysis was conducted to identify cell-cell communication patterns altered due to stroke in diabetic conditions.</p> </li> <li> <p><strong>dbdb_control_cellchat.rda</strong>: CellChat object for db/db control (no stroke) mice. Provides baseline data for diabetic conditions.</p> </li> <li> <p><strong>dbp_case_cellchat.rda</strong>: CellChat object for the db/+ (normoglycemic) mice with ischemic stroke, representing the stroke model in non-diabetic conditions.</p> </li> <li> <p><strong>dbp_control_cellchat.rda</strong>: CellChat object for db/+ control (no stroke) mice. Baseline for non-diabetic, non-stroke conditions.</p> </li> </ul> <p><strong>Methods</strong>: CellChat analysis identifies ligand-receptor interactions to reveal cross-talk between monocyte subtypes, focusing on pathways affected by T2DM and stroke. These data provide insights into thromboinflammatory responses, interferon signaling, and immune suppression in diabetic mice.</p> <h4><code>scrna_sequencing_raw/</code></h4> <ul> <li> <p><strong>db_db-DMCAO.zip</strong>: Raw scRNA-seq data for db/db mice post-distal middle cerebral artery occlusion (DMCAO).</p> </li> <li> <p><strong>db_db-Sham.zip</strong>: Raw scRNA-seq data for db/db mice with sham surgery (control).</p> </li> <li> <p><strong>db_pos-Sham.zip</strong>: Raw scRNA-seq data for db/+ mice with sham surgery.</p> </li> <li> <p><strong>db_pos-dMCAO.zip</strong>: Raw scRNA-seq data for db/+ mice post-DMCAO.</p> </li> </ul> <p><strong>Methods</strong>: scRNA-seq was performed using 10X Genomics GemCode Technology. Data were processed with Cell Ranger (v1.3), and differential gene expression analysis was conducted in Seurat with normalization based on UMI counts.</p> <h4><code>seurat_object/</code></h4> <ul> <li> <p><strong>bloodstroke.rda</strong>: Seurat object containing processed scRNA-seq data of peripheral blood mononuclear cells (PBMCs) from both diabetic and normoglycemic mice under stroke and sham conditions. Contains cell clusters annotated using SingleR and the ImmGen database.</p> </li> <li> <p><strong>monocytes.rda</strong>: Seurat object specifically for monocytes, enriched through re-clustering in Seurat. Enables focused analysis of monocyte subsets and their responses to diabetic and ischemic conditions.</p> </li> </ul> <p><strong>Methods</strong>: Filtering was performed for cells with fewer than 500 detected genes, and data were normalized using log-normalization. Clustering was carried out with PCA and visualized with UMAP.</p> <h4><code>trajectory_object/</code></h4> <ul> <li> <p><strong>dbdb_control_cds.rda</strong>: Cell Data Set (CDS) object for db/db control monocytes, representing baseline differentiation trajectory under diabetic conditions.</p> </li> <li> <p><strong>dbdb_stroke_cds.rda</strong>: CDS for db/db stroke monocytes, used to observe pseudotime trajectories and differentiation in diabetic and ischemic states.</p> </li> <li> <p><strong>dbp_control_cds.rda</strong>: CDS for db/+ control monocytes, baseline data for normoglycemic mice.</p> </li> <li> <p><strong>dbp_stroke_cds.rda</strong>: CDS for db/+ stroke monocytes, tracking pseudotime trajectory in response to ischemic stroke.</p> </li> <li> <p><strong>monocytes_cds.rda</strong>: CDS focusing on monocyte trajectory across all experimental conditions, facilitating the comparison of diabetic and normoglycemic trajectories.</p> </li> </ul> <p><strong>Methods</strong>: Trajectory analysis was conducted in Monocle 3 to explore cellular differentiation paths. Trajectories reveal potential maturation stages and highlight changes due to T2DM and ischemic conditions.</p> <h2>Methodology Overview</h2> <ol> <li> <p><strong>scRNA-seq and Bulk RNA-seq</strong>: Mononuclear cells were isolated and sequenced using 10X Genomics protocols, with analysis in Seurat to determine cell clusters, particularly monocytes. Bulk RNA-seq was used for pathway validation in broader cell populations.</p> </li> <li> <p><strong>CellChat Analysis</strong>: Ligand-receptor interactions were identified in CellChat, analyzing how cell communication changes with T2DM and stroke. Pathways of interest include the Anxa1-Fpr2 axis for thromboinflammation and MHCII-CD4 for immune activation.</p> </li> <li> <p><strong>Trajectory Analysis</strong>: Using Monocle 3, we investigated monocyte differentiation paths to uncover the effects of T2DM and stroke on cellular progression. Results demonstrate disrupted monocyte differentiation and increased proinflammatory markers in diabetic stroke conditions.</p> </li> <li> <p><strong>NicheNet Analysis</strong>: Identified key ligands affecting monocyte gene expression in diabetic versus non-diabetic conditions, highlighting interferon signaling and inflammatory markers such as Ccl6, Ccl9, and Ifng.</p> </li> </ol> <h2>Notes</h2> <ul> <li> <p>Ensure all analyses respect data filtering thresholds as set in Seurat and Monocle.</p> </li> <li> <p>Refer to the manuscript for further details on experimental setup, animal models, and additional context.</p> </li> </ul> <h2>License</h2> <p>Data and scripts are available for non-commercial use under a Creative Commons License.</p>
Effects of Myostatin gene knockout on white fat browning and related gene expression in type 2 diabetic mice
<p><strong>Supplementary material</strong></p>
Single-cell RNA-seq uncovers the pathological alterations of pancreatic islets in type 2 diabetes mice
GEO Series GSE200531. Mus musculus. 2 samples. Type: Expression profiling by high throughput sequencing.
Specific mesoderm subset derived from human pluripotent stem cells ameliorates microvascular pathology in type 2 diabetic mice
GEO Series GSE191206. Homo sapiens. 4 samples. Type: Expression profiling by high throughput sequencing.
Sex-specific epigenetics drive low GPER expression in gastrointestinal smooth muscles in Type 2 diabetic mice
GEO Series GSE240515. Mus musculus. 40 samples. Type: Methylation profiling by high throughput sequencing.
Differences in PBMC mRNA profiles between control and type 2 diabetic mice
GEO Series GSE241618. Mus musculus. 8 samples. Type: Expression profiling by high throughput sequencing.
Distinct hippocampal expression profiles in obese type 2 diabetes db/db mice after DMDD treatment
GEO Series GSE174378. Mus musculus. 6 samples. Type: Non-coding RNA profiling by array.
A maple syrup extract alleviates liver injury in type 2 diabetic model mice
GEO Series GSE134185. Mus musculus. 16 samples. Type: Expression profiling by array.
MicroRNA-mRNA expression profiles and functional networks of Submandibular Gland in type 2 diabetic db/db mice
GEO Series GSE141412. Mus musculus. 16 samples. Type: Expression profiling by array; Non-coding RNA profiling by array; Non-coding RNA profiling by high throughput sequencing.
Pharmacological inhibition of tyrosine protein-kinase 2 reduces islet inflammation and delays type 1 diabetes onset in mice
GEO Series GSE262211. Mus musculus. 274 samples. Type: Other.
Identification of circularRNAs in neutrophil of type 2 diabetic mice
GEO Series GSE213297. Mus musculus. 6 samples. Type: Non-coding RNA profiling by array.
Liver gene expression signatures for type 2 diabetic mice and normal mice
GEO Series GSE36412. Mus musculus. 8 samples. Type: Expression profiling by array.
Benefits of a 6 week supplementation of sebacic acid on a mouse model of type 2 diabetes (db/db mice)
GEO Series GSE21083. Mus musculus. 30 samples. Type: Expression profiling by array.
MicroRNA-mRNA expression profiles and functional networks of Submandibular Gland in type 2 diabetic db/db mice [array]
GEO Series GSE141411. Mus musculus. 8 samples. Type: Non-coding RNA profiling by array; Expression profiling by array.
mRNA sequence of renal cortex from Type 2 diabetic (db/db)mice and non-diabetic (db/m) mice
GEO Series GSE215291. Mus musculus. 8 samples. Type: Expression profiling by high throughput sequencing.
Genome-wide transcriptional alterations during vascular growth in skeletal muscles of type 2 diabetic mice in response to femoral artery ligation
GEO Series GSE69123. Mus musculus. 24 samples. Type: Expression profiling by high throughput sequencing.
RNA-Seq of kidney glomeruli and renal tubules from Type 2 diabetic (db/db) and non-diabetic mice
GEO Series GSE184836. Mus musculus. 12 samples. Type: Expression profiling by high throughput sequencing.
RNA-Seq of Kidney Glomeruli from Type 2 diabetic (db/db) and non-diabetic mice
GEO Series GSE77717. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome analysis of isolated glomeruli from obese type 2 diabetic mice treated with enarodustat
GEO Series GSE131266. Mus musculus. 9 samples. Type: Expression profiling by array.
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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)
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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.
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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.