AptaTRACE: Elucidating Sequence-Structure Binding Motifs by Uncovering Selection Trends in HT-SELEX Experiments. - Phuong Dao; Jan Hoinka; Yijie Wang 004; Mayumi Takahashi; Jiehua Zhou; Fabrizio Costa; John Rossi; John Burnett; Rolf Backofen; Teresa M. Przytycka (RECOMB, 2016)

NetREX: Network Rewiring Using EXpression - Towards Context Specific Regulatory Networks. - Yijie Wang 004; Dong-Yeon Cho; Hangnoh Lee; Brian Oliver; Teresa M. Przytycka (RECOMB, 2017)

AptaBlocks: Accelerating the Design of RNA-Based Drug Delivery Systems. - Yijie Wang 004; Jan Hoinka; Piotr Swiderski; Teresa M. Przytycka (RECOMB, 2018)

Accurate Sub-population Detection and Mapping Across Single Cell Experiments with PopCorn. - Yijie Wang 004; Jan Hoinka; Teresa M. Przytycka (RECOMB, 2019)

Reconstruction of Gene Regulatory Networks by Integrating Biological Model and a Recommendation System. - Yijie Wang 004; Justin M. Fear; Isabelle Berger; Hangnoh Lee; Brian Oliver; Teresa M. Przytycka (RECOMB, 2020)

AptaBlocks Online: A Web-Based Toolkit for the In Silico Design of Oligonucleotide Sticky Bridges. - Jan Hoinka; Yijie Wang 004; Teresa M. Przytycka (J. Comput. Biol., 2020)