ruppinlab / tcga-microbiome-predictionLinks
Predictive models and analysis of cancer prognosis and drug response using primary tumor microbial abundances derived from WGS and RNA-seq sequencing data for 32 TCGA cancers (Poore et al. Nature 2020), including equivalent models using TCGA RNA-seq gene expression and combined microbial abundance and gene expression for comparison.
☆18Updated 10 months ago
Alternatives and similar repositories for tcga-microbiome-prediction
Users that are interested in tcga-microbiome-prediction are comparing it to the libraries listed below
Sorting:
- Homologous recombination deficiency in TCGA PanCancer Atlas☆28Updated 4 years ago
- ☆47Updated 8 months ago
- Analysis code used in Galeano Nino et al., Impact of Intratumoral Microbiota on Spatial and Cellular Heterogeneity in human cancer. 2022☆37Updated last year
- scWGCNA☆61Updated 2 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆43Updated 4 years ago
- Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).☆46Updated last year
- Repository for Cibersortx☆61Updated 4 years ago
- An R package for classification of immune subtypes, in cancer, using gene expression data.☆46Updated 8 months ago
- ☆29Updated 11 months ago
- An R package to plot maps of clone distributions in somatic evolution☆17Updated last year
- scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data☆31Updated 2 years ago
- Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours☆27Updated 4 years ago
- identifying disease critical cell types and programs from single cell RNAseq☆57Updated 3 years ago
- Code for the identification step for CSI-Microbes☆30Updated 9 months ago
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆51Updated last year
- Code repo for all analysis done for the 'Pan-cancer whole genome comparison of primary and metastatic solid tumors' study.☆18Updated 2 years ago
- ☆18Updated last year
- Reproducibility repository accompanying Wilk, Rustagi, Zhao, et al. "A single-cell atlas of the peripheral immune response to severe COVI…☆49Updated 3 years ago
- GLASS consortium☆42Updated 5 years ago
- ☆51Updated last year
- Hypoxia associated molecular feature analysis☆35Updated 5 years ago
- ☆32Updated 4 years ago
- ☆42Updated last year
- ☆32Updated 3 years ago
- Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles☆33Updated 5 months ago
- Bayesian network plot for the enrichment analysis results☆65Updated 11 months ago
- An R package to time somatic mutations☆62Updated 4 years ago
- An integrated platform for modeling gene-regulatory dynamics and networks☆32Updated last year
- ☆20Updated 4 years ago
- codes used in the human kidney eQTL(cf) and eQTL(ci) and snATAC-seq data☆19Updated 4 years ago