Structure-Based Sequence Alignment of the Transmembrane Domains of All Human GPCRs: Phylogenetic, Structural and Functional Implications. - Vaclav Cvicek; William A. Goddard III; Ravinder Abrol (PLoS Comput. Biol., 2016)

ETC: Encoding Long and Structured Inputs in Transformers. - Joshua Ainslie; Santiago Ontañón; Chris Alberti; Vaclav Cvicek; Zachary Fisher; Philip Pham; Anirudh Ravula; Sumit Sanghai; Qifan Wang 001; Li Yang (EMNLP (1), 2020)

Making Transformers Solve Compositional Tasks. - Santiago Ontañón; Joshua Ainslie; Zachary Fisher; Vaclav Cvicek (ACL (1), 2022)

LogicInference: A New Dataset for Teaching Logical Inference to seq2seq Models. - Santiago Ontañón; Joshua Ainslie; Vaclav Cvicek; Zachary Fisher (CoRR, 2022)

SPIRe: Boosting LLM Inference Throughput with Speculative Decoding. - Sanjit Neelam; Daniel Heinlein; Vaclav Cvicek; Akshay Mishra; Reiner Pope (CoRR, 2025)