Publication date: Jul 06, 2025
To further investigate and discover the key DEGs, we performed network analysis using network propagation on BioGRID proteinprotein interaction (PPI) network . The data were analyzed using R (version 4. 4.1) and a customized in-house pipeline, which consists of sequential steps including batch correction, normalization, and differential gene expression analysis. Finally, the slides were washed with 2X SSC two times, 5 min each time. Differential analysis was carried out on the normalized counts using DESeq2 to identify differentially expressed genes (DEGs) between the two groups. Digital slides were evaluated using a pathology slide viewing software (Aperio ImageScope ver. To reduce technical variability across samples, batch correction was performed using the betweenLaneNormalization function , which adjusts for global differences in overall signal intensity between ROIs. ROIs were manually drawn based on prior pAS and NF IHC staining, and guided by morphology markers CD34/PECAM, PGP 9. 5, and SMA used in GeoMx slide staining.
| Concepts | Keywords |
|---|---|
| Biogrid | Dsp |
| Chemotherapy | Geomx |
| Diethylpyrocarbonate | Min |
| Library | Nanostring |
| Seoul | Network |
| Onset | |
| Performed | |
| Rois | |
| Slide | |
| Slides | |
| Snuh | |
| Staining | |
| Surgical | |
| Times | |
| Usa |
Semantics
| Type | Source | Name |
|---|---|---|
| disease | MESH | Parkinson’s disease |
| disease | MESH | cancer |
| disease | MESH | movement disorder |
| disease | MESH | parkinsonian syndromes |
| disease | MESH | syndrome |
| disease | MESH | secondary parkinsonism |
| disease | MESH | causes |
| disease | MESH | dementia |
| drug | DRUGBANK | Methionine |
| drug | DRUGBANK | Formaldehyde |
| drug | DRUGBANK | Aminosalicylic Acid |
| drug | DRUGBANK | Serine |
| drug | DRUGBANK | Flunarizine |
| drug | DRUGBANK | Water |
| drug | DRUGBANK | Sodium Citrate |