Jason Fan

According to our database, Jason Fan authored at least 10 papers between 2018 and 2025.

Collaborative distances:

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

2025

Direct Confidence Alignment: Aligning Verbalized Confidence with Internal Confidence In Large Language Models.

Glenn Zhang, Treasure Mayowa, Jason Fan, Yicheng Fu, Aaron Sandoval, Sean O'Brien, Kevin Zhu

CoRR, December, 2025

2024

Where the Patterns Are: Repetition-Aware Compression for Colored de Bruijn Graphs^*.

Alessio Campanelli, Giulio Ermanno Pibiri, Jason Fan, Rob Patro

J. Comput. Biol., 2024

Meta-colored Compacted de Bruijn Graphs.

Giulio Ermanno Pibiri, Jason Fan, Rob Patro

Proceedings of the Research in Computational Molecular Biology, 2024

2023

Analyzing and indexing huge reference sequence collections.

Jason Fan

PhD thesis, 2023

Fulgor: A Fast and Compact {k-mer} Index for Large-Scale Matching and Color Queries.

Jason Fan, Noor Pratap Singh, Jamshed Khan, Giulio Ermanno Pibiri, Rob Patro

Proceedings of the 23rd International Workshop on Algorithms in Bioinformatics, 2023

Spectrum Preserving Tilings Enable Sparse and Modular Reference Indexing.

Jason Fan, Jamshed Khan, Giulio Ermanno Pibiri, Rob Patro

Proceedings of the Research in Computational Molecular Biology, 2023

2022

ScalpelSig Designs Targeted Genomic Panels from Data to Detect Activity of Mutational Signatures.

Nicholas Franzese, Jason Fan, Roded Sharan, Mark D. M. Leiserson

J. Comput. Biol., 2022

2021

Perplexity: Evaluating Transcript Abundance Estimation in the Absence of Ground Truth.

Jason Fan, Skylar Chan, Rob Patro

Proceedings of the 21st International Workshop on Algorithms in Bioinformatics, 2021

2020

Matrix (factorization) reloaded: flexible methods for imputing genetic interactions with cross-species and side information.

Jason Fan, Xuan Cindy Li, Mark Crovella, Mark D. M. Leiserson

Bioinform., 2020

2018

A Multi-species Functional Embedding Integrating Sequence and Network Structure.

Mark D. M. Leiserson, Jason Fan, Anthony Cannistra, Inbar Fried, Tim Lim, Thomas Schaffner, Mark Crovella, Benjamin J. Hescott

Proceedings of the Research in Computational Molecular Biology, 2018