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bulkTCR-seq of CD4+ T cells from lymph nodes and tumors of NSCLC patients

This study explore the CD4+ T cells clonality in paired lymph nodes and tumors of 5 different NSCLC patients.

Type: RNASeq
Archive: European Genome-phenome Archive (EGA)

1 Dataset 1 Publication

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD50000000424	This dataset contains data derived from FACS-sorted CD4+ T cells. This dataset contains FASTQ files for: - paired blood, lymph node, and tumor single-cell RNA-seq (scRNA-seq) samples from 5 patients with NSCLC (including scRNA-seq coupled to scTCR-seq for 3 patients), - paired blood, lymph node, and tumor single-cell ATAC-seq (scATAC-seq) samples from 2 patients with NSCLC, - lymph node and tumor bulk RNA-seq and TCR-seq data from CD4+ T cell subsets (Treg-Tfr, Treg-Trm, Treg-Naive, Tconv-Tfh, Tconv-CXCL13, and Tconv-Naive) from 5 patients (one patient has lymph node samples only). In addition, this dataset includes processed analysis files: - Seurat object for scRNA-seq data, - fragment files generated by Cell Ranger for scATAC-seq samples, - contig annotations generated by Cell Ranger for scTCR-seq samples. Sequencing was performed using Illumina NovaSeq, MiSeq, or HiSeq Rapid Run platforms.	Illumina HiSeq X Illumina MiSeq Illumina NovaSeq X	139

Publications	Citations
Clonal sharing and plasticity of follicular CD4 + T cells across lymph nodes and tumors in non-small cell lung cancer. Tosello Boari J, Richer W, Missolo-Koussou Y, Bonnin E, Lemoine S, Pretti MA, Ramos RN, Mesple J, Denizeau J, Baulande S, Bohec M, Lameiras S, Martin P, Mena Osuna R, Sun W, Lefevre M, Seguin-Givelet A, Sedlik C, Ramos F, Kumar S, Perié L, Graça L, Lantz O, Borcoman E, Girard N, Waterfall JJ, Piaggio E. Nat Commun 17: 2026 9959	0

Publications

Citations

Clonal sharing and plasticity of follicular CD4 + T cells across lymph nodes and tumors in non-small cell lung cancer.
Tosello Boari J, Richer W, Missolo-Koussou Y, Bonnin E, Lemoine S, Pretti MA, Ramos RN, Mesple J, Denizeau J, Baulande S, Bohec M, Lameiras S, Martin P, Mena Osuna R, Sun W, Lefevre M, Seguin-Givelet A, Sedlik C, Ramos F, Kumar S, Perié L, Graça L, Lantz O, Borcoman E, Girard N, Waterfall JJ, Piaggio E. Nat Commun 17: 2026 9959