Expression profiling by high throughput sequencing Methylation profiling by high throughput sequencing Summary: This SuperSeries is composed of the following SubSeries: GSE112786: "Molecular characterization of neuroendocrine prostate cancer organoids and PDOX by RNA-seq GSE112829: Methylation profile of neuroendocrine prostate cancer models. Both of the SubSeries concerns information neuroendocrine...

Summary from GEO: "Phenotyping of tumors into hot, altered, or cold based on assessment of only T-cell infiltration in static tumor biopsies provides suboptimal prediction of immunotherapy response. In vivo dynamic mechanisms within the tumor microenvironment such as tumor angiogenesis and leukocyte trafficking also play a central role in modulating anti-tumor immunity and therefore immunotherapy...

Description from GitHub: "PhenoGraph is a clustering method designed for high-dimensional single-cell data. It works by creating a graph ("network") representing phenotypic similarities between cells and then identifying communities in this graph. This software package includes compiled binaries that run community detection based on C++ code written by E. Lefebvre and J.-L. Guillaume in 2008 ("Louvain...

Description from GitHub: "Microsatellite Instability (MSI) is a phenotypic measure of deficiencies in DNA mismatch repair (MMR) machinery. These deficiencies lead to replication slippage in microsatellite regions, resulting in varying lengths of deletions in tumor samples. Detecting proper MSI status with high sensitivity and specificity in cancer patients is a critical priority in clinical genomics,...