Aaron Lun
Aaron Lun
Verified email at gene.com
Title
Cited by
Cited by
Year
Pooling across cells to normalize single-cell RNA sequencing data with many zero counts
ATL Lun, K Bach, JC Marioni
Genome biology 17 (1), 75, 2016
3992016
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, 2018
3952018
Scater: pre-processing, quality control, normalization and visualization of single-cell RNA-seq data in R
DJ McCarthy, KR Campbell, ATL Lun, QF Wills
Bioinformatics 33 (8), 1179-1186, 2017
3742017
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
3692016
Three-dimensional disorganization of the cancer genome occurs coincident with long-range genetic and epigenetic alterations
PC Taberlay, J Achinger-Kawecka, ATL Lun, FA Buske, K Sabir, ...
Genome research 26 (6), 719-731, 2016
1512016
From reads to genes to pathways: differential expression analysis of RNA-Seq experiments using Rsubread and the edgeR quasi-likelihood pipeline
Y Chen, ATL Lun, GK Smyth
F1000Research 5, 2016
1412016
It’s DE-licious: a recipe for differential expression analyses of RNA-seq experiments using quasi-likelihood methods in edgeR
ATL Lun, Y Chen, GK Smyth
Methods in Molecular Biology 1418, 391-416, 2016
1412016
csaw: a Bioconductor package for differential binding analysis of ChIP-seq data using sliding windows
ATL Lun, GK Smyth
Nucleic acids research 44 (5), e45-e45, 2016
1162016
Differential Expression Analysis of Complex RNA-seq Experiments Using edgeR
Y Chen, ATL Lun, GK Smyth
Statistical Analysis of Next Generation Sequencing Data, 51-74, 2014
1072014
diffHic: a Bioconductor package to detect differential genomic interactions in Hi-C data
ATL Lun, GK Smyth
BMC Bioinformatics 16 (1), 258, 2015
972015
De novo detection of differentially bound regions for ChIP-seq data using peaks and windows: controlling error rates correctly
ATL Lun, GK Smyth
Nucleic acids research 42 (11), e95-e95, 2014
712014
EmptyDrops: distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data
ATL Lun, S Riesenfeld, T Andrews, T Gomes, JC Marioni
Genome Biology 20 (1), 63, 2019
672019
EGF-mediated induction of Mcl-1 at the switch to lactation is essential for alveolar cell survival
NY Fu, AC Rios, B Pal, R Soetanto, ATL Lun, K Liu, T Beck, SA Best, ...
Nature Cell Biology 17 (4), 365-375, 2015
522015
Isolation and Comparative Transcriptome Analysis of Human Fetal and iPSC-Derived Cone Photoreceptor Cells
E Welby, J Lakowski, V Di Foggia, D Budinger, A Gonzalez-Cordero, ...
Stem cell reports 9 (6), 1898-1915, 2017
462017
Repression of Igf1 expression by Ezh2 prevents basal cell differentiation in the developing lung
LA Galvis, AZ Holik, KM Short, J Pasquet, ATL Lun, ME Blewitt, IM Smyth, ...
Development 142 (8), 1458-1469, 2015
442015
Detection and removal of barcode swapping in single-cell RNA-Seq data
JA Griffiths, AC Richard, K Bach, ATL Lun, JC Marioni
Nature Communications 9 (1), 2667, 2018
432018
Specificity of RNAi, LNA and CRISPRi as loss-of-function methods in transcriptional analysis
L Stojic, ATL Lun, J Mangei, P Mascalchi, V Quarantotti, AR Barr, C Bakal, ...
Nucleic acids research, 2018
392018
Overcoming confounding plate effects in differential expression analyses of single-cell RNA-seq data
ATL Lun, JC Marioni
Biostatistics 18 (3), 451-464, 2017
382017
Testing for differential abundance in mass cytometry data
ATL Lun, AC Richard, JC Marioni
Nature methods 14 (7), 707-709, 2017
342017
Assessing the reliability of spike-in normalization for analyses of single-cell RNA sequencing data
ATL Lun, FJ Calero-Nieto, L Haim-Vilmovsky, B Göttgens, JC Marioni
Genome research 27 (11), 1795-1806, 2017
332017
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