TimiGP: Inferring cell-cell interactions and prognostic associations in the tumor immune microenvironment through gene pairs.

ABSTRACT: Determining the prognostic association of different immune cell types in the tumor microenvironment is critical for understanding cancer biology and developing new therapeutic strategies. However, this is challenging in certain cancer types, where the abundance of different immune subsets is highly correlated. In this study, we develop a computational method named TimiGP to overcome this challenge. Based on bulk gene expression and survival data, TimiGP infers cell-cell interactions that reveal the association between immune cell relative abundance and prognosis. As demonstrated in metastatic melanoma, TimiGP prioritizes immune cells critical in prognosis based on the identified cell-cell interactions. Highly consistent results are obtained by TimiGP when applied to seven independent melan

SUBMITTER: Li C 

PROVIDER: S-EPMC10394258 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature