SingleCell-TransCompR-AD

Script Descriptions

AD Differential Expression Microglia - Combined: Performing differential expression between AD/5xFAD and C/WT microglia
AD GSEA Ranked - Combined: Performing gene set enrichment analysis with fgsea on mouse regular and sparse PCs
AD Human Preprocessing- GSE147528: Preprocessing data from GSE147528 to prepare for standard processing
AD Human Processing Orthologs - GSE147528: Processing human single-nucleus RNA-sequencing data from GSE147528
AD Human Processing Orthologs - GSE157827: Processing human single-nucleus RNA-sequencing data from GSE157827
AD Human Processing Orthologs - GSE174367: Processing human single-nucleus RNA-sequencing data from GSE174367
AD Human Processing Orthologs - GSE175814: Processing human single-nucleus RNA-sequencing data from GSE175814
AD Microglia Processing - GSE140510: Isolating microglia from GSE140510
AD Microglia Processing - GSE147528: Isolating microglia from GSE147528
AD Microglia Processing - GSE157827: Isolating microglia from GSE157827
AD Microglia Processing - GSE174367: Isolating microglia from GSE174367
AD Microglia Processing - GSE175814: Isolating microglia from GSE175814
AD Microglia Processing - GSE208863: Isolating microglia from GSE208863
AD Mouse Processing Orthologs - GSE140510: Processing mouse single-nucleus RNA-sequencing data from GSE140510
AD Mouse Processing Orthologs - GSE208683: Processing mouse single-nucleus RNA-sequencing data from GSE208683
AD Ortholog PCA - Combined Model: Performing standard PCA on mouse data, projecting human data into mouse PC space, evaluating significant PCs with GLMs
AD Ortholog sPCA 200 - Combined Model: Performing sparse PCA with 200 nonzero features per component on mouse data, projecting human data into mouse PC space, evaluating significant PCs with GLMs
AD Ortholog sPCA 500 - Combined Model: Performing sparse PCA with 500 nonzero features per component on mouse data, projecting human data into mouse PC space, evaluating significant PCs with GLMs
AD Sparsity Analysis - Combined Model
AD Variance Explained - Combined: Finding the variance mouse PCs explain in human datasets
Ortholog Finder - Six Datasets: Finding one-to-one orthologs between the two mouse and four human datasets used for analysis