Nathan C. Sheffield

According to our database, Nathan C. Sheffield authored at least 12 papers between 2016 and 2023.

Collaborative distances:

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

2023

excluderanges: exclusion sets for T2T-CHM13, GRCm39, and other genome assemblies.

Jonathan D. Ogata, Wancen Mu, Eric S. Davis, Bingjie Xue, J. Chuck Harrell, Nathan C. Sheffield, Douglas H. Phanstiel, Michael I. Love, Mikhail G. Dozmorov

Bioinform., April, 2023

GEOfetch: a command-line tool for downloading data and standardized metadata from GEO and SRA.

Oleksandr Khoroshevskyi, Nathan Leroy, Vincent P. Reuter, Nathan C. Sheffield

Bioinform., March, 2023

2021

Refget: standardized access to reference sequences.

Andrew D. Yates, Jeremy Adams, Somesh Chaturvedi, Robert Davies, Matthew R. Laird, Rasko Leinonen, Rishi Nag, Nathan C. Sheffield, Oliver Hofmann, Thomas M. Keane

Bioinform., 2021

Embeddings of genomic region sets capture rich biological associations in lower dimensions.

Erfaneh Gharavi, Aaron Gu, Guangtao Zheng, Jason P. Smith, Hyun Jae Cho, Aidong Zhang, Donald E. Brown, Nathan C. Sheffield

Bioinform., 2021

IGD: high-performance search for large-scale genomic interval datasets.

Jianglin Feng, Nathan C. Sheffield

Bioinform., 2021

2019

Augmented Interval List: a novel data structure for efficient genomic interval search.

Jianglin Feng, Aakrosh Ratan, Nathan C. Sheffield

Bioinform., 2019

2018

Coloc-stats: a unified web interface to perform colocalization analysis of genomic features.

Boris Simovski, Chakravarthi Kanduri, Sveinung Gundersen, Dmytro Titov, Diana Domanska, Christoph Bock, Lara Bossini-Castillo, Maria Chikina, Alexander V. Favorov, Ryan M. Layer, Andrey A. Mironov, Aaron R. Quinlan, Nathan C. Sheffield, Gosia Trynka, Geir Kjetil Sandve

Nucleic Acids Res., 2018

LOLAweb: a containerized web server for interactive genomic locus overlap enrichment analysis.

V. P. Nagraj, Neal E. Magee, Nathan C. Sheffield

Nucleic Acids Res., 2018

simpleCache: R caching for reproducible, distributed, large-scale projects.

Nathan C. Sheffield, V. P. Nagraj, Vincent P. Reuter

J. Open Source Softw., 2018

BART: a transcription factor prediction tool with query gene sets or epigenomic profiles.

Zhenjia Wang, Mete Civelek, Clint L. Miller, Nathan C. Sheffield, Michael J. Guertin, Chongzhi Zang

Bioinform., 2018

MIRA: an R package for DNA methylation-based inference of regulatory activity.

John T. Lawson, Eleni M. Tomazou, Christoph Bock, Nathan C. Sheffield

Bioinform., 2018

2016

LOLA: enrichment analysis for genomic region sets and regulatory elements in R and Bioconductor.

Nathan C. Sheffield, Christoph Bock

Bioinform., 2016