Publications by authors named "Maria Carilli"

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Monod: model-based discovery and integration through fitting stochastic transcriptional dynamics to single-cell sequencing data.
Gennady Gorin, Tara Chari, Maria Carilli, John J Vastola, Lior Pachter

Nat Methods· November 2025

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: model-based discovery and integration through fitting stochastic transcriptional dynamics to single-cell sequencing data.
Gennady Gorin, Tara Chari, Maria Carilli, John J Vastola, Lior Pachter

bioRxiv· November 2025

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The Rayleigh Quotient and Contrastive Principal Component Analysis I.
Maria Carilli, Kayla Jackson, Lior Pachter

bioRxiv· November 2025

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Detection of viral sequences at single-cell resolution identifies novel viruses associated with host gene expression changes.
Laura Luebbert, Delaney K Sullivan, Maria Carilli, Kristján Eldjárn Hjörleifsson, Alexander Viloria Winnett

Nat Biotechnol· April 2025

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Efficient and accurate detection of viral sequences at single-cell resolution reveals putative novel viruses perturbing host gene expression.
Laura Luebbert, Delaney K Sullivan, Maria Carilli, Kristján Eldjárn Hjörleifsson, Alexander Viloria Winnett

bioRxiv· January 2025

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Spectral neural approximations for models of transcriptional dynamics.
Gennady Gorin, Maria Carilli, Tara Chari, Lior Pachter

Biophys J· September 2024

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Biophysical modeling with variational autoencoders for bimodal, single-cell RNA sequencing data.
Maria Carilli, Gennady Gorin, Yongin Choi, Tara Chari, Lior Pachter

Nat Methods· August 2024

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Biophysical modeling with variational autoencoders for bimodal, single-cell RNA sequencing data.
Maria Carilli, Gennady Gorin, Yongin Choi, Tara Chari, Lior Pachter

bioRxiv· May 2023

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CST does not evict elongating telomerase but prevents initiation by ssDNA binding.
Arthur J Zaug, Ci Ji Lim, Conner L Olson, Maria T Carilli, Karen J Goodrich

Nucleic Acids Res· November 2021

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