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W. Evan Johnson
W. Evan Johnson
Professor of Medicine
Verified email at rutgers.edu
Title
Cited by
Cited by
Year
Adjusting batch effects in microarray expression data using empirical Bayes methods
WE Johnson, C Li, A Rabinovic
Biostatistics 8 (1), 118-127, 2007
72902007
The sva package for removing batch effects and other unwanted variation in high-throughput experiments
JT Leek, WE Johnson, HS Parker, AE Jaffe, JD Storey
Bioinformatics 28 (6), 882-883, 2012
45822012
Tackling the widespread and critical impact of batch effects in high-throughput data
JT Leek, RB Scharpf, HC Bravo, D Simcha, B Langmead, WE Johnson, ...
Nature Reviews Genetics 11 (10), 733-739, 2010
21082010
ComBat-seq: batch effect adjustment for RNA-seq count data
Y Zhang, G Parmigiani, WE Johnson
NAR genomics and bioinformatics 2 (3), lqaa078, 2020
7452020
Low concordance of multiple variant-calling pipelines: practical implications for exome and genome sequencing
J O'Rawe, T Jiang, G Sun, Y Wu, W Wang, J Hu, P Bodily, L Tian, ...
Genome medicine 5, 1-18, 2013
5482013
Model-based analysis of tiling-arrays for ChIP-chip
WE Johnson, W Li, CA Meyer, R Gottardo, JS Carroll, M Brown, XS Liu
Proceedings of the National Academy of Sciences 103 (33), 12457-12462, 2006
5002006
sva: Surrogate variable analysis
JT Leek, WE Johnson, HS Parker, EJ Fertig, AE Jaffe, JD Storey, Y Zhang, ...
R package version 3 (0), 882-883, 2019
4702019
Using VAAST to identify an X-linked disorder resulting in lethality in male infants due to N-terminal acetyltransferase deficiency
AF Rope, K Wang, R Evjenth, J Xing, JJ Johnston, JJ Swensen, B Moore, ...
The American Journal of Human Genetics, 2011
2872011
Decontamination of ambient RNA in single-cell RNA-seq with DecontX
S Yang, SE Corbett, Y Koga, Z Wang, WE Johnson, M Yajima, ...
Genome biology 21, 1-15, 2020
2632020
A single-sample microarray normalization method to facilitate personalized-medicine workflows
SR Piccolo, Y Sun, JD Campbell, ME Lenburg, AH Bild, WE Johnson
Genomics 100 (6), 337-344, 2012
2572012
Alternative preprocessing of RNA-Sequencing data in The Cancer Genome Atlas leads to improved analysis results
M Rahman, LK Jackson, WE Johnson, DY Li, AH Bild, SR Piccolo
Bioinformatics 31 (22), 3666-3672, 2015
2192015
DNA specificity determinants associate with distinct transcription factor functions
PC Hollenhorst, KJ Chandler, RL Poulsen, WE Johnson, NA Speck, ...
PLoS genetics 5 (12), e1000778, 2009
2172009
PathoScope 2.0: a complete computational framework for strain identification in environmental or clinical sequencing samples
C Hong, S Manimaran, Y Shen, JF Perez-Rogers, AL Byrd, ...
Microbiome 2, 1-15, 2014
2112014
The cancer microbiome: distinguishing direct and indirect effects requires a systemic view
JB Xavier, VB Young, J Skufca, F Ginty, T Testerman, AT Pearson, ...
Trends in cancer 6 (3), 192-204, 2020
1942020
Batch effects and noise in microarray experiments: sources and solutions
A Scherer
Wiley, 2009
1882009
Nascent peptides that block protein synthesis in bacteria
CJ Woolstenhulme, S Parajuli, DW Healey, DP Valverde, EN Petersen, ...
Proceedings of the National Academy of Sciences 110 (10), E878-E887, 2013
1742013
Pathoscope: species identification and strain attribution with unassembled sequencing data
OE Francis, M Bendall, S Manimaran, C Hong, NL Clement, ...
Genome research 23 (10), 1721-1729, 2013
1522013
Combating subclonal evolution of resistant cancer phenotypes
SW Brady, JA McQuerry, Y Qiao, SR Piccolo, G Shrestha, DF Jenkins, ...
Nature communications 8 (1), 1231, 2017
1472017
Model-based analysis of two-color arrays (MA2C)
JS Song, WE Johnson, X Zhu, X Zhang, W Li, AK Manrai, JS Liu, R Chen, ...
Genome biology 8, 1-13, 2007
1362007
Metataxonomic and metagenomic approaches vs. culture-based techniques for clinical pathology
SK Hilton, E Castro-Nallar, M Pérez-Losada, I Toma, TA McCaffrey, ...
Frontiers in microbiology 7, 484, 2016
1142016
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Articles 1–20