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Multi-region scRNA and scTCR data on ADAPTeR patient cohort

dataset
posted on 2021-09-14, 12:42 authored by Gordon BeattieGordon Beattie, Lewis AuLewis Au, Emine Hatipoglu, Marc Robert De Massy, Kevin LitchfieldKevin Litchfield, Desiree Schnidrig, Rachael ThompsonRachael Thompson, Fiona ByrneFiona Byrne, Stuart Horswell, Nicos Fotiadis, Steve Hazell, David Nicol, Scott ShepherdScott Shepherd, Annika Fendler, Robert Mason, Lyra Del Rosario, Kim Edmonds, Karla Lingard, Sarah Sarker, Mary Mangwende, Eleanor Carlyle, Jan Attig, Kroopa Joshi, Imran UddinImran Uddin, Pablo D. Becker, Mariana Werner Sunderland, Ayse Akarca, Ignazio Puccio, William Yang, Tom Lund, Kim DhillonKim Dhillon, Marcos Vasquez Duran, Ehsan Ghorani, Hang Xu, Charlotte SpencerCharlotte Spencer, Jose Lopez, Anna Green, Ula Mahedeva, Elaine Borg, Miriam Mitchison, David MooreDavid Moore, Ian Proctor, Mary Falzon, Lisa Pickering, Andrew Furness, James ReadingJames Reading, Roberto Salgado, Teresa MarafiotiTeresa Marafioti, Mariam Jamal-HanjaniMariam Jamal-Hanjani, George KassiotisGeorge Kassiotis, James Larkin, Charles SwantonCharles Swanton, Benny ChainBenny Chain, Sergio QuezadaSergio Quezada, Samra TurajlicSamra Turajlic
scRNA and scTCR data for the manuscript 'Determinants of anti-PD-1 response and resistance in clear cell renal cell carcinoma'

Samples: Tumour infiltrating lymphocyes taken from two ccRCC patients post anti-PD-1 (nivolumab) treatment. One responder patient, one non-responder patient. For each patient cells were split by IgG4 binding (IgG4 = proxy for nivolumab binding), followed by 10x paired scRNA and scTCR sequencing.

Data analysis: sequencing files were demultiplexed and mapped to the hg38 genome and VDJ reference using cellranger count and cellranger vdj respectively. Expression matrices and VDJ annotations are provided in this submission. Also provided is cell metadata containing UMAP co-ordinates and other information pertinent to this study.

Files types: .mtx, .tsv, .csv

FIle size (compressed) 183.5MB

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