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The updated version of the TIMER web tool, which estimates immune cell content in tumour gene expression data using six different algorithms side by side so users can see where they agree.
Li, Liu and colleagues released TIMER2.0, extending their immune estimation web server with multiple deconvolution methods, including TIMER, CIBERSORT, quanTIseq, xCell, MCP-counter and EPIC, applied to TCGA tumours and to user-uploaded expression data. The server lets users relate immune infiltration estimates to gene expression, somatic mutations, copy number and survival across cancer types, and to compare the estimates from different algorithms, which often disagree.
TIMER2.0 is one of the most used tools in cancer immunogenomics and its multi-algorithm design is a reminder that computational immune cell estimates are model-dependent and should be cross-checked.
Shares Li 2017: TIMER, a web server for estimating immune cells in tumour genomic data, Immune system, Tumour-infiltrating lymphocytes (TILs).
Shares Immune system, Tumour-infiltrating lymphocytes (TILs).
Shares Immune system, Tumour-infiltrating lymphocytes (TILs).
Shares Immune system, Tumour-infiltrating lymphocytes (TILs).