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Biorxiv : the Preprint Server for Biology|May 7, 2024
A latent variable model for evaluating mutual exclusivity and co-occurrence between driver mutations in cancerAhmed Shuaibi, Uthsav Chitra, Benjamin J RaphaelNature Communications|February 17, 2025
Resolving discrepancies between chimeric and multiplicative measures of higher-order epistasisUthsav Chitra, Brian Arnold, Benjamin J RaphaelBiorxiv : the Preprint Server for Biology|July 29, 2024
Quantifying higher-order epistasis: beware the chimeraUthsav Chitra, Brian J Arnold, Benjamin J RaphaelJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|December 16, 2022
NetMix2: A Principled Network Propagation Algorithm for Identifying Altered SubnetworksUthsav Chitra, Tae Yoon Park, Benjamin J RaphaelJournal of Computational Biology : a Journal of Computational Molecular Cell Biology|January 5, 2021
NetMix: A Network-Structured Mixture Model for Reduced-Bias Estimation of Altered SubnetworksMatthew A Reyna, Uthsav Chitra, Rebecca Elyanow, et al.Bioinformatics (Oxford, England)|July 15, 2025
GASTON-Mix: a unified model of spatial gradients and domains using spatial mixture-of-expertsUthsav Chitra, Shu Dan, Fenna Krienen, et al.Bioinformatics (Oxford, England)|June 28, 2024
A count-based model for delineating cell-cell interactions in spatial transcriptomics dataHirak Sarkar, Uthsav Chitra, Julian Gold, et al.Cell Systems|October 20, 2022
Belayer: Modeling discrete and continuous spatial variation in gene expression from spatially resolved transcriptomicsCong Ma, Uthsav Chitra, Shirley Zhang, et al.Bioinformatics (Oxford, England)|July 15, 2025
Anomaly detection in spatial transcriptomics via spatially localized density comparisonGary Hu, Julian Gold, Uthsav Chitra, et al.Nature Methods|January 23, 2025
Mapping the topography of spatial gene expression with interpretable deep learningUthsav Chitra, Brian J Arnold, Hirak Sarkar, et al.Pageof 17