Sean R. Davis

According to our database, Sean R. Davis authored at least 15 papers between 2004 and 2024.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of three.

2024

Learning and teaching biological data science in the Bioconductor community.

Jenny Drnevich, Frederick J. Tan, Fabricio Almeida-Silva, Robert Castelo, Aedín C. Culhane, Sean Davis, Maria A. Doyle, Susan Holmes, Leo Lahti, Alexandru Mahmoud, Kozo Nishida, Marcel Ramos, Kevin C. Rue-Albrecht, David J. H. Shih, Laurent Gatto, Charlotte Soneson

CoRR, 2024

2022

Ten simple rules for large-scale data processing.

Arkarachai Fungtammasan, Alexandra Lee, Jaclyn N. Taroni, Kurt Wheeler, Chen-Shan Chin, Sean Davis, Casey S. Greene

PLoS Comput. Biol., 2022

2021

Toward a gold standard for benchmarking gene set enrichment analysis.

Ludwig Geistlinger, Gergely Csaba, Mara Santarelli, Marcel Ramos, Lucas Schiffer, Nitesh Turaga, Charity W. Law, Sean Davis, Vincent J. Carey, Martin Morgan, Ralf Zimmer, Levi Waldron

Briefings Bioinform., 2021

2019

BiocPkgTools: Toolkit for mining the<i> Bioconductor</i> package ecosystem.

Shian Su, Vincent J. Carey, Lori A. Shepherd, Matthew E. Ritchie, Martin T. Morgan, Sean Davis

F1000Research, 2019

restfulSE: A semantically rich interface for cloud-scale genomics with Bioconductor.

Shweta Gopaulakrishnan, Samuela Pollack, BJ Stubbs, Hervé Pagès, John Readey, Sean Davis, Levi Waldron, Martin Morgan, Vincent J. Carey

F1000Research, 2019

2018

Orchestrating a community-developed computational workshop and accompanying training materials.

Sean Davis, Marcel Ramos, Lori A. Shepherd, Nitesh Turaga, Ludwig Geistlinger, Martin T. Morgan, Benjamin Haibe-Kains, Levi Waldron

F1000Research, 2018

2016

caOmicsV: an R package for visualizing multidimensional cancer genomic data.

Hongen Zhang, Paul S. Meltzer, Sean R. Davis

BMC Bioinform., 2016

Public data and open source tools for multi-assay genomic investigation of disease.

Lavanya Kannan, Marcel Ramos, Angela Re, Nehme Hachem, Zhaleh Safikhani, Deena M. A. Gendoo, Sean Davis, David Gomez-Cabrero, Robert Castelo, Kasper D. Hansen, Vincent J. Carey, Martin Morgan, Aedín C. Culhane, Benjamin Haibe-Kains, Levi Waldron

Briefings Bioinform., 2016

2013

NCBI GEO: archive for functional genomics data sets - update.

Tanya Barrett, Stephen E. Wilhite, Pierre Ledoux, Carlos Evangelista, Irene F. Kim, Maxim Tomashevsky, Kimberly A. Marshall, Katherine H. Phillippy, Patti M. Sherman, Michelle Holko, Andrey Yefanov, Hyeseung Lee, Naigong Zhang, Cynthia L. Robertson, Nadezhda Serova, Sean R. Davis, Alexandra Soboleva

Nucleic Acids Res., 2013

SRAdb: query and use public next-generation sequencing data from within R.

Yuelin Zhu, Robert M. Stephens, Paul S. Meltzer, Sean R. Davis

BMC Bioinform., 2013

RCircos: an R package for Circos 2D track plots.

Hongen Zhang, Paul S. Meltzer, Sean Davis

BMC Bioinform., 2013

2008

GEOmetadb: powerful alternative search engine for the Gene Expression Omnibus.

Yuelin Zhu, Sean R. Davis, Robert M. Stephens, Paul S. Meltzer, Yidong Chen

Bioinform., 2008

2007

GEOquery: a bridge between the Gene Expression Omnibus (GEO) and BioConductor.

Sean R. Davis, Paul S. Meltzer

Bioinform., 2007

2005

BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis.

Steffen Durinck, Yves Moreau, Arek Kasprzyk, Sean R. Davis, Bart De Moor, Alvis Brazma, Wolfgang Huber

Bioinform., 2005

2004

Are We There Yet? Genomic Profiling and Mechanism in Cancer Research.

Paul S. Meltzer, Sean R. Davis, Kristin Baird, Yidong Chen

Proceedings of the 3rd International IEEE Computer Society Computational Systems Bioinformatics Conference, 2004