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.
☆17Updated 8 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☆27Updated 4 years ago
- ☆47Updated 6 months ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆43Updated 4 years ago
- Repository for Cibersortx☆61Updated 4 years ago
- Public code repository for the Banovich Lab at the Translational Genomics Research Institute (TGen).☆46Updated last year
- Code for the identification step for CSI-Microbes☆29Updated 7 months ago
- scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data☆30Updated 2 years ago
- ☆28Updated 9 months ago
- Code repo for all analysis done for the 'Pan-cancer whole genome comparison of primary and metastatic solid tumors' study.☆16Updated 2 years 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
- ☆49Updated 11 months ago
- ☆82Updated last year
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆50Updated 11 months ago
- Pan-cancer mycobiome atlas☆27Updated 2 years ago
- TIDE (Tumor Immune Dysfunction and Exclusion), a gene expression biomarker to predict the clinical response to immune checkpoint blockade…☆30Updated 5 years ago
- An R package to plot maps of clone distributions in somatic evolution☆17Updated last year
- codes used in the human kidney eQTL(cf) and eQTL(ci) and snATAC-seq data☆19Updated 4 years ago
- ☆17Updated last year
- ☆14Updated 4 months ago
- A Deep Learning-Based Model for Quantifying Transposable Elements in Single-Cell Sequencing Data☆28Updated 3 months ago
- ☆18Updated last year
- A robust and accurate cell type classifier for single cell RNA-seq data☆16Updated 2 years ago
- ☆20Updated 4 years ago
- ☆32Updated 5 months ago
- Bayesian network plot for the enrichment analysis results☆64Updated 9 months ago
- ☆32Updated 4 years ago
- Transcriptomic tools to classify bladder tumours according to six published molecular classifications : Baylor, UNC, MDA, Lund, CIT-Curie…☆27Updated 2 years ago
- Code repository for single cell RNA-seq☆35Updated 4 years ago
- Hypoxia associated molecular feature analysis☆35Updated 5 years ago
- ☆82Updated 10 months ago