Location and condition based reconstruction of colon cancer microbiome from human RNA sequencing data.

Background: The association between microbes and cancer has been reported repeatedly; however, it is not clear if molecular tumour properties are connected to specific microbial colonisation patterns. This is due mainly to the current technical and analytical strategy limitations to characterise tumour-associated bacteria.

Methods: Here, we propose an approach to detect bacterial signals in human RNA sequencing data and associate them with the clinical and molecular properties of the tumours.

GZMK CD8 T effector memory cells are associated with CD15 neutrophil abundance in non-metastatic colorectal tumors and predict poor clinical outcome.

CD8 T cells are a major prognostic determinant in solid tumors, including colorectal cancer (CRC). However, understanding how the interplay between different immune cells impacts on clinical outcome is still in its infancy. Here, we describe that the interaction of tumor infiltrating neutrophils expressing high levels of CD15 with CD8 T effector memory cells (T) correlates with tumor progression.