Leek, Jeffrey T.

The <tt>sva</tt> package for removing batch effects and other unwanted variation in high-throughput experiments

Leek, J. T., Johnson, W. E., Parker, H. S., Jaffe, A. E., & Storey, J. D. (2012) · Bioinformatics

Gene expression and cancer classificationSingle-cell and spatial transcriptomics

Cited by 6,231

Tackling the widespread and critical impact of batch effects in high-throughput data

Leek, J. T., Scharpf, R. B., Bravo, H. C., Simcha, D., Langmead, B., Johnson, W. E., Geman, D., Baggerly, K., & Irizarry, R. A. (2010) · Nature Reviews Genetics

Gene expression and cancer classificationBioinformatics and Genomic Networks

Cited by 2,196

Capturing Heterogeneity in Gene Expression Studies by Surrogate Variable Analysis

Leek, J. T., & Storey, J. D. (2007) · PLoS Genetics

Gene expression and cancer classificationBioinformatics and Genomic Networks

Cited by 1,930

Temporal dynamics and genetic control of transcription in the human prefrontal cortex

Colantuoni, C., Lipska, B. K., Ye, T., Hyde, T. M., Tao, R., Leek, J. T., Colantuoni, E. A., Elkahloun, A. G., Herman, M. M., Weinberger, D. R., et al. (2011) · Nature

Genetic Associations and EpidemiologyGenomics and Chromatin Dynamics

Cited by 685

Transparency and reproducibility in artificial intelligence

Haibe-Kains, B., Adam, G. A., Hosny, A., Khodakarami, F., Massive Analysis Quality Control (MAQC) Society Board of Directors, Shraddha, T., Kusko, R., Sansone, S.-A., Tong, W., Wolfinger, R. D., et al. (2020) · Nature

Explainable Artificial Intelligence (XAI)Ethics and Social Impacts of AI

Cited by 540

Developmental and genetic regulation of the human cortex transcriptome illuminate schizophrenia pathogenesis

The BrainSeq Consortium, Jaffe, A. E., Straub, R. E., Shin, J. H., Tao, R., Gao, Y., Collado-Torres, L., Kam-Thong, T., Xi, H. S., Quan, J., et al. (2018) · Nature Neuroscience

Schizophrenia research and treatmentGenetic Associations and Epidemiology

Cited by 364

Polyester : simulating RNA-seq datasets with differential transcript expression

Frazee, A. C., Jaffe, A. E., Langmead, B., & Leek, J. T. (2015) · Bioinformatics

Genomics and Phylogenetic StudiesGene expression and cancer classification

Cited by 313

What Should Researchers Expect When They Replicate Studies? A Statistical View of Replicability in Psychological Science

Patil, P., Peng, R. D., & Leek, J. T. (2016) · Perspectives on Psychological Science

Meta-analysis and systematic reviewsPsychology Research and Bibliometrics

Cited by 243

Sequencing technology does not eliminate biological variability

Hansen, K. D., Wu, Z., Irizarry, R. A., & Leek, J. T. (2011) · Nature Biotechnology

Genomics and Phylogenetic StudiesSingle-cell and spatial transcriptomics

Cited by 226

An estimate of the science-wise false discovery rate and application to the top medical literature

Jager, L. R., & Leek, J. T. (2014) · Biostatistics

Meta-analysis and systematic reviewsscientometrics and bibliometrics research

Cited by 179

Developmental regulation of human cortex transcription and its clinical relevance at single base resolution

Jaffe, A. E., Shin, J., Collado-Torres, L., Leek, J. T., Tao, R., Li, C., Gao, Y., Jia, Y., Maher, B. J., Hyde, T. M., et al. (2015) · Nature Neuroscience

Single-cell and spatial transcriptomicsGenomics and Chromatin Dynamics

Cited by 156

Evolution of cellular morpho-phenotypes in cancer metastasis.

Wu, P.-H., Phillip, J. M., Khatau, S. B., Chen, W.-C., Stirman, J., Rosseel, S., Tschudi, K., Van Patten, J., Wong, M., Gupta, S., et al. (2015) · Scientific Reports

Cell Image Analysis TechniquesCancer Cells and Metastasis

Cited by 117

qSVA framework for RNA quality correction in differential expression analysis

Jaffe, A. E., Tao, R., Norris, A. L., Kealhofer, M., Nellore, A., Shin, J. H., Kim, D., Jia, Y., Hyde, T. M., Kleinman, J. E., et al. (2017) · Proceedings of the National Academy of Sciences

Gene expression and cancer classificationSingle-cell and spatial transcriptomics

Cited by 114

The practical effect of batch on genomic prediction

Parker, H. S., & Leek, J. T. (2012) · Statistical Applications in Genetics and Molecular Biology

Gene expression and cancer classificationBioinformatics and Genomic Networks

Cited by 34

Gene and protein expression in human megakaryocytes derived from induced pluripotent stem cells

Kammers, K., Taub, M. A., Mathias, R. A., Yanek, L. R., Kanchan, K., Venkatraman, V., Sundararaman, N., Martin, J., Liu, S., Hoyle, D., et al. (2021) · Journal of Thrombosis and Haemostasis

Platelet Disorders and TreatmentsPluripotent Stem Cells Research

Cited by 10

A glass half full interpretation of the replicability of psychological science

Leek, J. T., Patil, P., & Peng, R. D. (2015) · arXiv

Meta-analysis and systematic reviewsPsychology Research and Bibliometrics

Cited by 1

Do We Really Even Need Data?

Hoffman, K., Salerno, S., Afiaz, A., Leek, J. T., & McCormick, T. H. (2024) · arXiv

Advanced Causal Inference TechniquesStatistical Methods and Bayesian Inference

Cited by 0