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John Marioni
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RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays
JC Marioni, CE Mason, SM Mane, M Stephens, Y Gilad
Genome research 18 (9), 1509-1517, 2008
32232008
Intratumor heterogeneity in human glioblastoma reflects cancer evolutionary dynamics
A Sottoriva, I Spiteri, SGM Piccirillo, A Touloumis, VP Collins, JC Marioni, ...
Proceedings of the National Academy of Sciences 110 (10), 4009-4014, 2013
15592013
Understanding mechanisms underlying human gene expression variation with RNA sequencing
JK Pickrell, JC Marioni, AA Pai, JF Degner, BE Engelhardt, E Nkadori, ...
Nature 464 (7289), 768-772, 2010
14362010
Science forum: the human cell atlas
A Regev, SA Teichmann, ES Lander, I Amit, C Benoist, E Birney, ...
elife 6, e27041, 2017
13912017
Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors
L Haghverdi, ATL Lun, MD Morgan, JC Marioni
Nature biotechnology 36 (5), 421-427, 2018
10912018
Computational and analytical challenges in single-cell transcriptomics
O Stegle, SA Teichmann, JC Marioni
Nature Reviews Genetics 16 (3), 133-145, 2015
10232015
Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells
F Buettner, KN Natarajan, FP Casale, V Proserpio, A Scialdone, FJ Theis, ...
Nature biotechnology 33 (2), 155-160, 2015
10102015
A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor
ATL Lun, DJ McCarthy, JC Marioni
F1000Research 5, 2016
9272016
The technology and biology of single-cell RNA sequencing
AA Kolodziejczyk, JK Kim, V Svensson, JC Marioni, SA Teichmann
Molecular cell 58 (4), 610-620, 2015
8992015
Accounting for technical noise in single-cell RNA-seq experiments
P Brennecke, S Anders, JK Kim, AA Kołodziejczyk, X Zhang, V Proserpio, ...
Nature methods 10 (11), 1093-1095, 2013
8622013
Pooling across cells to normalize single-cell RNA sequencing data with many zero counts
AT L Lun, K Bach, JC Marioni
Genome biology 17 (1), 1-14, 2016
7662016
A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis
TA Down, VK Rakyan, DJ Turner, P Flicek, H Li, E Kulesha, S Graef, ...
Nature biotechnology 26 (7), 779-785, 2008
7342008
Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data
JF Degner, JC Marioni, AA Pai, JK Pickrell, E Nkadori, Y Gilad, ...
Bioinformatics 25 (24), 3207-3212, 2009
5752009
Resolving the fibrotic niche of human liver cirrhosis at single-cell level
P Ramachandran, R Dobie, JR Wilson-Kanamori, EF Dora, ...
Nature 575 (7783), 512-518, 2019
5482019
Eleven grand challenges in single-cell data science
D Lähnemann, J Köster, E Szczurek, DJ McCarthy, SC Hicks, ...
Genome biology 21 (1), 1-35, 2020
4622020
Classification of low quality cells from single-cell RNA-seq data
T Ilicic, JK Kim, AA Kolodziejczyk, FO Bagger, DJ McCarthy, JC Marioni, ...
Genome biology 17 (1), 1-15, 2016
4612016
Multi‐Omics Factor Analysis—a framework for unsupervised integration of multi‐omics data sets
R Argelaguet, B Velten, D Arnol, S Dietrich, T Zenz, JC Marioni, F Buettner, ...
Molecular systems biology 14 (6), e8124, 2018
4402018
Single cell RNA-sequencing of pluripotent states unlocks modular transcriptional variation
AA Kolodziejczyk, JK Kim, JCH Tsang, T Ilicic, J Henriksson, ...
Cell stem cell 17 (4), 471-485, 2015
4262015
A single-cell molecular map of mouse gastrulation and early organogenesis
B Pijuan-Sala, JA Griffiths, C Guibentif, TW Hiscock, W Jawaid, ...
Nature 566 (7745), 490-495, 2019
4242019
scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells
SJ Clark, R Argelaguet, CA Kapourani, TM Stubbs, HJ Lee, ...
Nature communications 9 (1), 1-9, 2018
4152018
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