Alan P. Boyle

According to our database, Alan P. Boyle authored at least 9 papers between 2008 and 2022.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2022

SEMplMe: a tool for integrating DNA methylation effects in transcription factor binding affinity predictions.

Sierra S. Nishizaki, Alan P. Boyle

BMC Bioinform., 2022

2020

MapGL: inferring evolutionary gain and loss of short genomic sequence features by phylogenetic maximum parsimony.

Adam Diehl, Alan P. Boyle

BMC Bioinform., 2020

Predicting the effects of SNPs on transcription factor binding affinity.

Sierra S. Nishizaki, Natalie Ng, Shengcheng Dong, Robert S. Porter, Cody Morterud, Colten Williams, Courtney Asman, Jessica A Switzenberg, Alan P. Boyle

Bioinform., 2020

2019

CGIMP: Real-time exploration and covariate projection for self-organizing map datasets.

Adam Diehl, Alan P. Boyle

J. Open Source Softw., 2019

2017

A proximity-based graph clustering method for the identification and application of transcription factor clusters.

Maxwell T. Spadafore, Kayvan Najarian, Alan P. Boyle

BMC Bioinform., 2017

2015

Mango: a bias-correcting ChIA-PET analysis pipeline.

Douglas H. Phanstiel, Alan P. Boyle, Nastaran Heidari, Michael P. Snyder

Bioinform., 2015

2014

Comparative analysis of regulatory information and circuits across distant species Open.

Alan P. Boyle, Carlos L. Araya, Cathleen Brdlik, Philip Cayting, Chao Cheng, Yong Cheng, Kathryn Gardner, LaDeana W. Hillier, Judith Janette, Lixia Jiang, Dionna Kasper, Trupti Kawli, Pouya Kheradpour, Anshul Kundaje, Jingyi Jessica Li, Lijia Ma, Wei Niu, E. Jay Rehm, Joel S. Rozowsky, Matthew Slattery, Rebecca Spokony, Robert Terrell, Dionne Vafeados, Daifeng Wang, Peter Weisdepp, Yi-Chieh Wu, Dan Xie, Koon-Kiu Yan, Elise A. Feingold, Peter J. Good, Michael J. Pazin, Haiyan Huang, Peter J. Bickel, Steven E. Brenner, Valerie Reinke, Robert H. Waterston, Mark Gerstein, Kevin P. White, Manolis Kellis, Michael Snyder

Nat., 2014

Sushi.R: flexible, quantitative and integrative genomic visualizations for publication-quality multi-panel figures.

Douglas H. Phanstiel, Alan P. Boyle, Carlos L. Araya, Michael P. Snyder

Bioinform., 2014

2008

F-Seq: a feature density estimator for high-throughput sequence tags.

Alan P. Boyle, Justin Guinney, Gregory E. Crawford, Terrence S. Furey

Bioinform., 2008