Invited: Multiclass RNA function classification using next-generation sequencing. - Paul Ryvkin; Yuk Yee Leung; Li-San Wang; Brian D. Gregory (ICCABS, 2011)

SAVoR: a server for sequencing annotation and visualization of RNA structures. - Fan Li 002; Paul Ryvkin; Daniel M. Childress; Otto Valladares; Brian D. Gregory; Li-San Wang (Nucleic Acids Res., 2012)

HIPPIE: a high-throughput identification pipeline for promoter interacting enhancer elements. - Yih-Chii Hwang; Chiao-Feng Lin; Otto Valladares; John Malamon; Pavel P. Kuksa; Qi Zheng; Brian D. Gregory; Li-San Wang (Bioinform., 2015)

A comprehensive database of high-throughput sequencing-based RNA secondary structure probing data (Structure Surfer). - Nathan D. Berkowitz; Ian M. Silverman; Daniel M. Childress; Hilal Kazan; Li-San Wang; Brian D. Gregory (BMC Bioinform., 2016)

DASHR: database of small human noncoding RNAs. - Yuk Yee Leung; Pavel P. Kuksa; Alexandre Amlie-Wolf; Otto Valladares; Lyle H. Ungar; Sampath Kannan; Brian D. Gregory; Li-San Wang (Nucleic Acids Res., 2016)

EPIC-CoGe: managing and analyzing genomic data. - Andrew D. L. Nelson; Asher Haug-Baltzell; Sean Davey; Brian D. Gregory; Eric Lyons 002 (Bioinform., 2018)

Elucidation of DNA methylation on N6-adenine with deep learning. - Fei Tan 002; Tian Tian; Xiurui Hou; Xiang Yu; Lei Gu; Fernanda Mafra; Brian D. Gregory; Zhi Wei 001; Hakon Hakonarson (Nat. Mach. Intell., 2020)