MiceDEGdb

MiceDEGdb compiles published RNA-seq data on differentially expressed genes from mouse strains used as models for studying age-related human diseases, with curated cross-species annotations linking mouse DEGs to same-direction expression changes in human homologs.

Key Features:

• Differential Expression Data Repository: Contains 21,754 DEGs representing 9,769 unique Mus musculus genes from 25 RNA-seq experiments.
• Multi-tissue Coverage: Integrates gene expression data from eight tissues including gum, bone, kidney, right ventricle, aortic arch, hippocampus, skeletal muscle and uterus.
• Multiple Mouse Strain Integration: Covers six genetic mouse strains: C57BL/6J, Ren1cCre|ZsGreen, B6.129S7(Cg)-Polgtm1Prol/J, BPN/3J, BPH/2J and Kunming.
• Human Disease Model Annotation: Documents mouse models for eight human diseases: hypertension, periodontal disease, bone fragility, renal fibrosis, smooth muscle remodeling, heart failure and circadian rhythm disorder.
• Cross-species Homolog Annotation: Features curated annotation of mouse DEGs using independent biomedical publications reporting same-direction expression changes in human homologs in patients versus healthy controls.
• Literature-linked Disease Annotations: Contains 85,092 annotations for 318 human genes across 895 diseases, referenced by 912 PubMed IDs.

Scientific Applications:

• Preclinical Research Support: Facilitates assessment of therapeutic approaches and candidate medicine evaluation in mouse models before clinical trials.
• Comparative Transcriptomics: Enables cross-species comparison of gene expression changes between mouse disease models and human patients.
• Age-related Disease Research: Supports studies on pathophysiological mechanisms of hypertension, periodontal disease, bone fragility, renal fibrosis, smooth muscle remodeling, heart failure and circadian rhythm disorder.
• Translational Medicine: Assists geneticists, molecular biologists, bioinformaticians, clinicians, pharmacologists and genetic advisors in personalized medicine.

Methodology:

Data were collected from 10 original articles reporting 25 RNA-seq experiments. Curated annotation of mouse DEGs was performed using independent biomedical publications about same-direction changes in expression levels of human homologs in patients relative to healthy volunteers.