Alan P Boyle

University of Michigan, Ann Arbor, Ann Arbor, MI 
Computational Biology, Genomics, Human Genetics
"Alan Boyle"


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Gregory E Crawford grad student 2005-2010 Duke
Terrence S. Furey grad student 2005-2010 Duke
Michael Snyder post-doc 2010-2014 Stanford
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McAfee JC, Lee S, Lee J, et al. (2023) Systematic investigation of allelic regulatory activity of schizophrenia-associated common variants. Cell Genomics. 3: 100404
Nishizaki SS, Boyle AP. (2022) SEMplMe: a tool for integrating DNA methylation effects in transcription factor binding affinity predictions. Bmc Bioinformatics. 23: 317
Qin T, Lee C, Li S, et al. (2022) Comprehensive enhancer-target gene assignments improve gene set level interpretation of genome-wide regulatory data. Genome Biology. 23: 105
Dong S, Boyle AP. (2021) Prioritization of regulatory variants with tissue-specific function in the non-coding regions of human genome. Nucleic Acids Research
McDonald TL, Zhou W, Castro CP, et al. (2021) Cas9 targeted enrichment of mobile elements using nanopore sequencing. Nature Communications. 12: 3586
Tsuzuki M, Sethuraman S, Coke AN, et al. (2020) Broad noncoding transcription suggests genome surveillance by RNA polymerase V. Proceedings of the National Academy of Sciences of the United States of America
Diehl AG, Boyle AP. (2020) MapGL: inferring evolutionary gain and loss of short genomic sequence features by phylogenetic maximum parsimony. Bmc Bioinformatics. 21: 416
Ouyang N, Boyle AP. (2020) TRACE: transcription factor footprinting using chromatin accessibility data and DNA sequence. Genome Research
Diehl AG, Ouyang N, Boyle AP. (2020) Transposable elements contribute to cell and species-specific chromatin looping and gene regulation in mammalian genomes. Nature Communications. 11: 1796
Lee CT, Cavalcante RG, Lee C, et al. (2020) Poly-Enrich: count-based methods for gene set enrichment testing with genomic regions. Nar Genomics and Bioinformatics. 2: lqaa006
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