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Liu, Nuo, Walaa Kattan, Benjamin Mead, Conner Kummerlowe, Thomas Cheng, Sarah Ingabire, Jamie H. Cheah, et al. 2024. “Scalable, Compressed Phenotypic Screening Using Pooled Perturbations”. Nature Biotechnology.

Nwizu, Chibuikem, Madeline Hughes, Michelle L. Ramseier, Andrew W. Navia, Alex K. Shalek, Nicolo Fusi, Srivatsan Raghavan, Peter S. Winter, Ava P. Amini, and Lorin Crawford. 2024. “Scalable Nonparametric Clustering With Unified Marker Gene Selection for Single-Cell RNA-Seq Data”. BioRxiv.

Kedzierska, Kasia Z., Lorin Crawford, Ava P. Amini, and Alex X. Lu. 2023. “Assessing the Limits of Zero-Shot Foundation Models in Single-Cell Biology”. BioRxiv.

Raghavan, Srivatsan, Peter S. Winter, Andrew W. Navia, Hannah L. Williams, Alan DelAdel, Kristen E. Lowder, Jennyfer Galvez-Reyes, et al. 2021. “Microenvironment Drives Cell State, Plasticity, and Drug Response in Pancreatic Cancer”. Cell.

Winter, Peter S., Michelle L. Ramseier, Andrew W. Navia, Sachit Saksena, Haley Strouf, Nezha Senhaji, Alan DenAdel, et al. 2024. “Mutation and Cell State Compatibility Is Required and Targetable in Ph+ Acute Lymphoblastic Leukemia Minimal Residual Disease”. BioRxiv.

DelAdel, Alan, Michelle L. Ramseier, Andrew W. Navia, Alex K. Shalek, Srivatsan Raghavan, Peter S. Winter, Ava P. Amini, and Lorin Crawford. 2024. “A Knockoff Calibration Method to Avoid Over-Clustering in Single-Cell RNA-Sequencing”. BioRxiv.