Sampling time-dependent artifacts in single-cell genomics studies

Sampling time-dependent artifacts in single-cell genomics studies

Robust protocols and automation now enable large-scale single-cell RNA and ATAC sequencing experiments and their application on biobank and clinical cohorts. However, technical biases introduced during sample acquisition can hinder solid, reproducible results, and a systematic benchmarking is requir...

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Hauptverfasser: Massoni-Badosa, R, Iacono, G, Moutinho, C, Kulis, M, Palau, N, Marchese, D, Rodríguez-Ubreva, Javier, Ballestar, E, Rodriguez-Esteban, G, Marsal, S, Aymerich, M, Colomer, D, Campo, E, Julià, A, Martín-Subero, J.I, Heyn, Holger, Universitat Autònoma de Barcelona
Format: Artikel
Sprache:eng
Schlagworte:
Benchmarking
Biobank
Chronic lymphocytic leukemia
CLL
Cryopreservation
PBMC
Peripheral blood mononuclear cells
RNA sequencing
Sampling
Single-cell
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Zusammenfassung:Robust protocols and automation now enable large-scale single-cell RNA and ATAC sequencing experiments and their application on biobank and clinical cohorts. However, technical biases introduced during sample acquisition can hinder solid, reproducible results, and a systematic benchmarking is required before entering large-scale data production. Here, we report the existence and extent of gene expression and chromatin accessibility artifacts introduced during sampling and identify experimental and computational solutions for their prevention.