MSIFinder: a python package for detecting MSI status using random forest classifier.

ABSTRACT:

Background

Microsatellite instability (MSI) is a common genomic alteration in colorectal cancer, endometrial carcinoma, and other solid tumors. MSI is characterized by a high degree of polymorphism in microsatellite lengths owing to the deficiency in the mismatch repair system. Based on the degree, MSI can be classified as microsatellite instability-high (MSI-H) and microsatellite stable (MSS). MSI is a predictive biomarker for immunotherapy efficacy in advanced/metastatic solid tumors, especially in colorectal cancer patients. Several computational approaches based on target panel sequencing data have been used to detect MSI; however, they are considerably affected by the sequencing depth and panel size.

Results

We developed MSIFinder, a python package for automatic MSI cla

SUBMITTER: Zhou T 

PROVIDER: S-EPMC8042960 | biostudies-literature | 2021 Apr

REPOSITORIES: biostudies-literature