Sampling artifacts in single-cell genomics cohort studies

Massoni-Badosa, R.; Iacono, G.; Moutinho, C.; Kulis, M.; Palau, N.; Marchese, D.; Rodriguez-Ubreva, J.; Ballestar, E.; Rodriguez-Esteban, G.; Marsal, S.; Aymerich, M.; Colomer, D.; Campo, E.; Jula, A.; Martin-Subero, J. I.; Heyn, H.

doi:10.1101/2020.01.15.897066

bioRxiv · 10.1101/2020.01.15.897066

Sampling artifacts in single-cell genomics cohort studies

Massoni-Badosa, R.·Iacono, G.·Moutinho, C.·Kulis, M.·Palau, N.·Marchese, D.·Rodriguez-Ubreva, J.·Ballestar, E.·Rodriguez-Esteban, G.·Marsal, S.·Aymerich, M.·Colomer, D.·Campo, E.·Jula, A.·Martin-Subero, J. I.·Heyn, H.

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Abstract

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.

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Massoni-Badosa, R., Iacono, G., Moutinho, C., Kulis, M., Palau, N., Marchese, D., Rodriguez-Ubreva, J., Ballestar, E., Rodriguez-Esteban, G., Marsal, S., Aymerich, M., Colomer, D., Campo, E., Jula, A., Martin-Subero, J. I., Heyn, H.. 2020-01-15. Sampling artifacts in single-cell genomics cohort studies. https://doi.org/10.1101/2020.01.15.897066

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