Upfront whole blood transcriptional patterns in patients receiving immune checkpoint inhibitors associate with clinical outcome

This repository contains supplementary materials for the research paper "Upfront whole blood transcriptional patterns in patients receiving immune checkpoint inhibitors associate with clinical outcome". The materials are organized in the following folders:

01_code: code to reproduce the results

02_raw_data_public: raw gene count data of the 14,085 whole blood transcriptomes from public datasets (PUBLIC)

03_raw_data_primero: raw gene count data of the 145 pre-ICI whole blood samples from the PRIMERO cohort, including sample annotation with response data ("primero_sample_anno.tsv")

04_ica: results of the independent component analysis on the PUBLIC dataset, including the transcriptional components ("ica_public_flipped_consensus_independent_components.tsv"), the gene set enrichment analysis results on these components, and the projected activities of the PRIMERO samples for these transcriptional components ("ica_primero_mixing_matrix_projected_corrected.tsv")