Spatial dynamics of CD39⁺CD8⁺ exhausted T cells reveal tertiary lymphoid structures-mediated response to PD-1 blockade in esophageal cancer

<p><strong>Data related to the paper</strong>: <em>"Spatial dynamics of CD39+CD8+ exhausted T cells reveal tertiary lymphoid structures-mediated response to PD-1 blockade in esophageal cancer,&rdquo;</em> <em>Nature Communications</em> (2024)</p> <p>The repository data consists of two main folders: <strong>IMC_dataset</strong> and <strong>MC_normalized_dataset</strong>.</p> <p><strong>IMC_dataset</strong> includes:</p> <ol> <li> <p><strong>IMC_denoised_dataset</strong>: This folder contains cell mask images and noise-reduced images for each sample.</p> </li> <li> <p><strong>IMC_raw_dataset</strong>: This folder contains raw, unprocessed data.</p> </li> <li> <p><strong>IMC_processed_data</strong>: This folder contains standardized single-cell information and spillover-corrected FCS files, along with the compensation matrix.</p> </li> </ol> <p>The <strong>MC_normalized dataset</strong> includes FCS files that have been sorted by barcode.</p> <p><strong>Please note</strong> that in the IMC dataset, the following mass channels are blank:</p> <ul> <li><strong>Tumor-ROI</strong>: 80Ar, 127I, 131Xe, 145Nd, 146Nd, 149Sm, 160Gd, 171Yb, 174Yb, 176Yb, 190Os</li> <li><strong>SLO-ROI</strong>: 80Ar, 127I, 131Xe, 145Nd, 146Nd, 149Sm, 160Gd, 176Yb, 190Os</li> </ul> <p>The names attached to the file names are IDs.</p>