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Table 1 Functional annotation of the immune-system-related metagene clusters

From: T-cell metagene predicts a favorable prognosis in estrogen receptor-negative and HER2-positive breast cancers

Metagene Incorporated genesa
IgG Most of the genes in this cluster represent genes of immunoglobulins of the immunoglobulin gamma type mainly associated with B lymphocytes
HCK This cluster encompasses genes specific for macrophages and cells of the monocyte/myeloid lineage such as hemopoietic cell kinase, CD163, Chemokine (C-C motif) receptor 1 (CCR1), complement receptors, and B7-2
MHC-II This cluster contains the HLA-DP, HLA-DQ, HLA-DR genes of the major histocompatability class II complex expressed on the surface of professional antigen-presenting cells for their interaction with T cells
LCK Genes in this cluster contain T-cell-specific markers such as CD3, T-cell receptor α, T-cell receptor β, lymphocyte-specific kinase, IL-7 receptor
MHC-I This cluster contains HLA-A, HLA-B, HLA-C, HLA-F and HLA-G genes of the major histocompatability class I complex common to all cell types for the presentation of intracellular antigens
STAT1 The genes in this cluster are associated with interferon signal transduction (like signal transducer and activator of transcription 1 and interferon regulatory factor 1 (IRF1)) and are also interferon inducible
Interferon All genes in this cluster represent genes known to be interferon inducible and that are associated with the interferon response of cells
  1. aSee Additional data file 5 for a detailed complete list of all genes.